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GeneBe API Showcase

This page demonstrates how to use the GeneBe API to query variant information. The API provides programmatic access to genomic annotations and variant data.

API presented here should be used for checking single variants. If you want to check many variants at once, please use other API endpoints that you will find in the documentation.

Documentation & Advanced Usage

Complete API documentation:docs.genebe.net/docs/api/overview/

Interactive endpoint tester:api.genebe.net/cloud/gb-api-doc/swagger-ui/

Python client for pandas:pypi.org/project/genebe/

Java CLI for VCF files:github.com/pstawinski/genebe-cli

All tools documented at:docs.genebe.net

API Request Examples for Variant: 3-186669022-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=186669022&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "3",
      "pos": 186669022,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "ENST00000232003.5",
      "consequences": [
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG",
          "gene_hgnc_id": 5181,
          "hgvs_c": "c.271C>T",
          "hgvs_p": "p.Pro91Ser",
          "transcript": "NM_000412.5",
          "protein_id": "NP_000403.1",
          "transcript_support_level": null,
          "aa_start": 91,
          "aa_end": null,
          "aa_length": 525,
          "cds_start": 271,
          "cds_end": null,
          "cds_length": 1578,
          "cdna_start": 289,
          "cdna_end": null,
          "cdna_length": 1947,
          "mane_select": "ENST00000232003.5",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG",
          "gene_hgnc_id": 5181,
          "hgvs_c": "c.271C>T",
          "hgvs_p": "p.Pro91Ser",
          "transcript": "ENST00000232003.5",
          "protein_id": "ENSP00000232003.4",
          "transcript_support_level": 1,
          "aa_start": 91,
          "aa_end": null,
          "aa_length": 525,
          "cds_start": 271,
          "cds_end": null,
          "cds_length": 1578,
          "cdna_start": 289,
          "cdna_end": null,
          "cdna_length": 1947,
          "mane_select": "NM_000412.5",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG",
          "gene_hgnc_id": 5181,
          "hgvs_c": "c.271C>T",
          "hgvs_p": "p.Pro91Ser",
          "transcript": "XM_005247415.5",
          "protein_id": "XP_005247472.1",
          "transcript_support_level": null,
          "aa_start": 91,
          "aa_end": null,
          "aa_length": 533,
          "cds_start": 271,
          "cds_end": null,
          "cds_length": 1602,
          "cdna_start": 289,
          "cdna_end": null,
          "cdna_length": 1971,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG",
          "gene_hgnc_id": 5181,
          "hgvs_c": "n.45C>T",
          "hgvs_p": null,
          "transcript": "ENST00000495413.1",
          "protein_id": null,
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4272,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.190G>A",
          "hgvs_p": null,
          "transcript": "ENST00000625877.1",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 472,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.151G>A",
          "hgvs_p": null,
          "transcript": "ENST00000626006.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 592,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.260G>A",
          "hgvs_p": null,
          "transcript": "ENST00000629106.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 905,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.215-1761G>A",
          "hgvs_p": null,
          "transcript": "ENST00000625303.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 950,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.214-26894G>A",
          "hgvs_p": null,
          "transcript": "ENST00000625386.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 529,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.327-17151G>A",
          "hgvs_p": null,
          "transcript": "ENST00000625741.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 653,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.215-26894G>A",
          "hgvs_p": null,
          "transcript": "ENST00000626633.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 438,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.51-17151G>A",
          "hgvs_p": null,
          "transcript": "ENST00000626649.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 667,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.340-17151G>A",
          "hgvs_p": null,
          "transcript": "ENST00000626845.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": -4,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 641,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.334-17151G>A",
          "hgvs_p": null,
          "transcript": "ENST00000627469.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": -4,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 617,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.504-1761G>A",
          "hgvs_p": null,
          "transcript": "ENST00000627830.2",
          "protein_id": null,
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          "mane_select": null,
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        },
        {
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          "consequences": [
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          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.215-26728G>A",
          "hgvs_p": null,
          "transcript": "ENST00000628190.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": -4,
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          "cdna_length": 532,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.215-17151G>A",
          "hgvs_p": null,
          "transcript": "ENST00000628253.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "cdna_length": 775,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.215-26894G>A",
          "hgvs_p": null,
          "transcript": "ENST00000628505.2",
          "protein_id": null,
          "transcript_support_level": 5,
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        },
        {
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          "canonical": false,
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          "strand": false,
          "consequences": [
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          ],
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          "exon_count": 7,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.419-17151G>A",
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          "transcript": "ENST00000629451.2",
          "protein_id": null,
          "transcript_support_level": 5,
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          "mane_select": null,
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          "biotype": null,
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        },
        {
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          "strand": false,
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          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.238+49445G>A",
          "hgvs_p": null,
          "transcript": "ENST00000630178.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": -4,
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          "cdna_length": 729,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.142-17528G>A",
          "hgvs_p": null,
          "transcript": "ENST00000630315.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
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          "cdna_start": null,
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          "cdna_length": 821,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
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          "protein_coding": false,
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          "exon_count": 6,
          "intron_rank": 2,
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          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.158-17151G>A",
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          "transcript": "ENST00000630331.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 490,
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        },
        {
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          "protein_coding": false,
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            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 4,
          "intron_rank": 3,
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          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.196+4976G>A",
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          "transcript": "ENST00000630726.2",
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          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": -4,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 256,
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        },
        {
          "aa_ref": null,
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          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 8,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.215-1761G>A",
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          "transcript": "ENST00000630864.2",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 1030,
          "mane_select": null,
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        },
        {
          "aa_ref": null,
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          "protein_coding": false,
          "strand": false,
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            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 1,
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          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.322-26894G>A",
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          "transcript": "ENST00000804467.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
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          "cdna_length": 611,
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        },
        {
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          "protein_coding": false,
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          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
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          "exon_count": 4,
          "intron_rank": null,
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          "gene_symbol": "HRG-AS1",
          "gene_hgnc_id": 55915,
          "hgvs_c": "n.-110G>A",
          "hgvs_p": null,
          "transcript": "ENST00000625826.1",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": null,
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          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 668,
          "mane_select": null,
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          "biotype": null,
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        }
      ],
      "gene_symbol": "HRG",
      "gene_hgnc_id": 5181,
      "dbsnp": "rs761776963",
      "frequency_reference_population": 0.0000043611967,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 7,
      "gnomad_exomes_af": 0.00000412968,
      "gnomad_genomes_af": 0.00000657177,
      "gnomad_exomes_ac": 6,
      "gnomad_genomes_ac": 1,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.28281792998313904,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.029999999329447746,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.065,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1003,
      "alphamissense_prediction": "Benign",
      "bayesdelnoaf_score": -0.58,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -0.093,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.03,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -4,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PP5,BP4,BS2",
      "acmg_by_gene": [
        {
          "score": -4,
          "benign_score": 5,
          "pathogenic_score": 1,
          "criteria": [
            "PP5",
            "BP4",
            "BS2"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000232003.5",
          "gene_symbol": "HRG",
          "hgnc_id": 5181,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.271C>T",
          "hgvs_p": "p.Pro91Ser"
        },
        {
          "score": 2,
          "benign_score": 1,
          "pathogenic_score": 3,
          "criteria": [
            "PM2",
            "PP5",
            "BP4"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000625877.1",
          "gene_symbol": "HRG-AS1",
          "hgnc_id": 55915,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.190G>A",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "Familial early-onset deep venous thrombosis,Hereditary thrombophilia due to congenital histidine-rich (poly-L) glycoprotein deficiency",
      "clinvar_classification": "Pathogenic/Likely pathogenic",
      "clinvar_review_status": "no assertion criteria provided",
      "clinvar_submissions_summary": "null",
      "phenotype_combined": "Familial early-onset deep venous thrombosis|Hereditary thrombophilia due to congenital histidine-rich (poly-L) glycoprotein deficiency",
      "pathogenicity_classification_combined": "Pathogenic/Likely pathogenic",
      "custom_annotations": null
    }
  ],
  "message": null
}