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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: 9-127868353-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=9&pos=127868353&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "9",
      "pos": 127868353,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "ENST00000644144.2",
      "consequences": [
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "c.484G>A",
          "hgvs_p": "p.Ala162Thr",
          "transcript": "NM_000476.3",
          "protein_id": "NP_000467.1",
          "transcript_support_level": null,
          "aa_start": 162,
          "aa_end": null,
          "aa_length": 194,
          "cds_start": 484,
          "cds_end": null,
          "cds_length": 585,
          "cdna_start": 569,
          "cdna_end": null,
          "cdna_length": 2192,
          "mane_select": "ENST00000644144.2",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "c.484G>A",
          "hgvs_p": "p.Ala162Thr",
          "transcript": "ENST00000644144.2",
          "protein_id": "ENSP00000494600.1",
          "transcript_support_level": null,
          "aa_start": 162,
          "aa_end": null,
          "aa_length": 194,
          "cds_start": 484,
          "cds_end": null,
          "cds_length": 585,
          "cdna_start": 569,
          "cdna_end": null,
          "cdna_length": 2192,
          "mane_select": "NM_000476.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000257524",
          "gene_hgnc_id": null,
          "hgvs_c": "n.*517G>A",
          "hgvs_p": null,
          "transcript": "ENST00000646171.1",
          "protein_id": "ENSP00000495484.1",
          "transcript_support_level": null,
          "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": 1947,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000257524",
          "gene_hgnc_id": null,
          "hgvs_c": "n.*517G>A",
          "hgvs_p": null,
          "transcript": "ENST00000646171.1",
          "protein_id": "ENSP00000495484.1",
          "transcript_support_level": null,
          "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": 1947,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "c.532G>A",
          "hgvs_p": "p.Ala178Thr",
          "transcript": "NM_001318122.2",
          "protein_id": "NP_001305051.1",
          "transcript_support_level": null,
          "aa_start": 178,
          "aa_end": null,
          "aa_length": 210,
          "cds_start": 532,
          "cds_end": null,
          "cds_length": 633,
          "cdna_start": 564,
          "cdna_end": null,
          "cdna_length": 2187,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "c.532G>A",
          "hgvs_p": "p.Ala178Thr",
          "transcript": "ENST00000223836.10",
          "protein_id": "ENSP00000223836.10",
          "transcript_support_level": 3,
          "aa_start": 178,
          "aa_end": null,
          "aa_length": 210,
          "cds_start": 532,
          "cds_end": null,
          "cds_length": 633,
          "cdna_start": 628,
          "cdna_end": null,
          "cdna_length": 736,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "c.484G>A",
          "hgvs_p": "p.Ala162Thr",
          "transcript": "NM_001318121.1",
          "protein_id": "NP_001305050.1",
          "transcript_support_level": null,
          "aa_start": 162,
          "aa_end": null,
          "aa_length": 194,
          "cds_start": 484,
          "cds_end": null,
          "cds_length": 585,
          "cdna_start": 624,
          "cdna_end": null,
          "cdna_length": 2253,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "c.484G>A",
          "hgvs_p": "p.Ala162Thr",
          "transcript": "ENST00000373156.5",
          "protein_id": "ENSP00000362249.1",
          "transcript_support_level": 3,
          "aa_start": 162,
          "aa_end": null,
          "aa_length": 194,
          "cds_start": 484,
          "cds_end": null,
          "cds_length": 585,
          "cdna_start": 647,
          "cdna_end": null,
          "cdna_length": 757,
          "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": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "n.306G>A",
          "hgvs_p": null,
          "transcript": "ENST00000413016.5",
          "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": 525,
          "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": 7,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000257524",
          "gene_hgnc_id": null,
          "hgvs_c": "n.984G>A",
          "hgvs_p": null,
          "transcript": "ENST00000476274.7",
          "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": 1164,
          "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": "AK1",
          "gene_hgnc_id": 361,
          "hgvs_c": "n.*108G>A",
          "hgvs_p": null,
          "transcript": "ENST00000550143.5",
          "protein_id": "ENSP00000449130.1",
          "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": 532,
          "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": 13,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000257524",
          "gene_hgnc_id": null,
          "hgvs_c": "n.*2159G>A",
          "hgvs_p": null,
          "transcript": "ENST00000643029.1",
          "protein_id": "ENSP00000496586.1",
          "transcript_support_level": null,
          "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": 3578,
          "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": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000257524",
          "gene_hgnc_id": null,
          "hgvs_c": "n.*2048G>A",
          "hgvs_p": null,
          "transcript": "ENST00000643338.1",
          "protein_id": "ENSP00000495890.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 3418,
          "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": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000257524",
          "gene_hgnc_id": null,
          "hgvs_c": "n.*2408G>A",
          "hgvs_p": null,
          "transcript": "ENST00000645007.1",
          "protein_id": "ENSP00000494773.1",
          "transcript_support_level": null,
          "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": 3286,
          "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": 14,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.3803G>A",
          "hgvs_p": null,
          "transcript": "NR_174625.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "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": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.3646G>A",
          "hgvs_p": null,
          "transcript": "NR_174626.1",
          "protein_id": null,
          "transcript_support_level": null,
          "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": 5269,
          "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": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.3683G>A",
          "hgvs_p": null,
          "transcript": "NR_174627.1",
          "protein_id": null,
          "transcript_support_level": null,
          "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": 5306,
          "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": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.3061G>A",
          "hgvs_p": null,
          "transcript": "NR_174628.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
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          "cdna_length": 4684,
          "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": 11,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.3006G>A",
          "hgvs_p": null,
          "transcript": "NR_174629.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
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          "cdna_start": null,
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          "cdna_length": 4629,
          "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": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.3042G>A",
          "hgvs_p": null,
          "transcript": "NR_174630.1",
          "protein_id": null,
          "transcript_support_level": null,
          "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": 4665,
          "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": 11,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "gene_hgnc_id": null,
          "hgvs_c": "n.2987G>A",
          "hgvs_p": null,
          "transcript": "NR_174631.1",
          "protein_id": null,
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          "gene_symbol": "ENSG00000257524",
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          "hgvs_c": "n.*2408G>A",
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          "transcript": "ENST00000645007.1",
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        {
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          "consequences": [
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          ],
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          "exon_count": 6,
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          "hgvs_c": "n.*504G>A",
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          "transcript": "ENST00000550992.1",
          "protein_id": "ENSP00000448741.1",
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        }
      ],
      "gene_symbol": "AK1",
      "gene_hgnc_id": 361,
      "dbsnp": "rs35902264",
      "frequency_reference_population": 0.0027075869,
      "hom_count_reference_population": 74,
      "allele_count_reference_population": 4351,
      "gnomad_exomes_af": 0.00220463,
      "gnomad_genomes_af": 0.00751149,
      "gnomad_exomes_ac": 3207,
      "gnomad_genomes_ac": 1144,
      "gnomad_exomes_homalt": 57,
      "gnomad_genomes_homalt": 17,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.005394697189331055,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.107,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0821,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.39,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.104,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "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": -20,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BP6_Very_Strong,BS1,BS2",
      "acmg_by_gene": [
        {
          "score": -20,
          "benign_score": 20,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BP6_Very_Strong",
            "BS1",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000644144.2",
          "gene_symbol": "AK1",
          "hgnc_id": 361,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.484G>A",
          "hgvs_p": "p.Ala162Thr"
        },
        {
          "score": -20,
          "benign_score": 20,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BP6_Very_Strong",
            "BS1",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000646171.1",
          "gene_symbol": "ENSG00000257524",
          "hgnc_id": null,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.*517G>A",
          "hgvs_p": null
        },
        {
          "score": -20,
          "benign_score": 20,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BP6_Very_Strong",
            "BS1",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "NR_174625.1",
          "gene_symbol": "ST6GALNAC4-ST6GALNAC6-AK1",
          "hgnc_id": null,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.3803G>A",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "Hemolytic anemia due to adenylate kinase deficiency,not provided",
      "clinvar_classification": "Benign/Likely benign",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "LB:3 B:1",
      "phenotype_combined": "not provided|Hemolytic anemia due to adenylate kinase deficiency",
      "pathogenicity_classification_combined": "Benign/Likely benign",
      "custom_annotations": null
    }
  ],
  "message": null
}