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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: 1-168104855-A-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=168104855&ref=A&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "1",
      "pos": 168104855,
      "ref": "A",
      "alt": "T",
      "effect": "5_prime_UTR_variant",
      "transcript": "ENST00000682931.1",
      "consequences": [
        {
          "aa_ref": "L",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.47T>A",
          "hgvs_p": "p.Leu16Gln",
          "transcript": "ENST00000271357.9",
          "protein_id": "ENSP00000271357.6",
          "transcript_support_level": 1,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 546,
          "cds_start": 47,
          "cds_end": null,
          "cds_length": 1641,
          "cdna_start": 224,
          "cdna_end": null,
          "cdna_length": 7806,
          "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": 1,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "n.55T>A",
          "hgvs_p": null,
          "transcript": "ENST00000493800.1",
          "protein_id": null,
          "transcript_support_level": 1,
          "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": 1381,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_001375883.1",
          "protein_id": "NP_001362812.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 529,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1590,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7815,
          "mane_select": "ENST00000682931.1",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "ENST00000682931.1",
          "protein_id": "ENSP00000506967.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 529,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1590,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7815,
          "mane_select": "NM_001375883.1",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "ENST00000367838.5",
          "protein_id": "ENSP00000356812.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 529,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1590,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2676,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "L",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.56T>A",
          "hgvs_p": "p.Leu19Gln",
          "transcript": "NM_001267609.1",
          "protein_id": "NP_001254538.1",
          "transcript_support_level": null,
          "aa_start": 19,
          "aa_end": null,
          "aa_length": 549,
          "cds_start": 56,
          "cds_end": null,
          "cds_length": 1650,
          "cdna_start": 674,
          "cdna_end": null,
          "cdna_length": 8257,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "L",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.56T>A",
          "hgvs_p": "p.Leu19Gln",
          "transcript": "ENST00000537209.5",
          "protein_id": "ENSP00000441039.1",
          "transcript_support_level": 2,
          "aa_start": 19,
          "aa_end": null,
          "aa_length": 549,
          "cds_start": 56,
          "cds_end": null,
          "cds_length": 1650,
          "cdna_start": 674,
          "cdna_end": null,
          "cdna_length": 8256,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "L",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.47T>A",
          "hgvs_p": "p.Leu16Gln",
          "transcript": "NM_001267611.1",
          "protein_id": "NP_001254540.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 546,
          "cds_start": 47,
          "cds_end": null,
          "cds_length": 1641,
          "cdna_start": 224,
          "cdna_end": null,
          "cdna_length": 7807,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_001267610.2",
          "protein_id": "NP_001254539.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 529,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1590,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7987,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_001349632.1",
          "protein_id": "NP_001336561.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 529,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1590,
          "cdna_start": null,
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          "cdna_length": 8351,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_001349633.1",
          "protein_id": "NP_001336562.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 529,
          "cds_start": -4,
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          "cds_length": 1590,
          "cdna_start": null,
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          "cdna_length": 8126,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_001349634.1",
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          "transcript_support_level": null,
          "aa_start": null,
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          "mane_select": null,
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          "biotype": null,
          "feature": null
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        {
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
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          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
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          "transcript": "NM_001375884.1",
          "protein_id": "NP_001362813.1",
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          "cds_start": -4,
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        {
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            "5_prime_UTR_variant"
          ],
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          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_001375885.1",
          "protein_id": "NP_001362814.1",
          "transcript_support_level": null,
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          "aa_length": 529,
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          "mane_select": null,
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          "feature": null
        },
        {
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          "consequences": [
            "5_prime_UTR_variant"
          ],
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          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
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          "gene_symbol": "GPR161",
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          "hgvs_c": "c.-5T>A",
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        {
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          ],
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          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "NM_153832.3",
          "protein_id": "NP_722561.1",
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          "cds_start": -4,
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          "cdna_length": 8437,
          "mane_select": null,
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        },
        {
          "aa_ref": null,
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          "canonical": false,
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          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null,
          "transcript": "ENST00000367835.1",
          "protein_id": "ENSP00000356809.1",
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          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
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          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 5,
          "intron_rank": 1,
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          "gene_symbol": "GPR161",
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          "hgvs_c": "c.141-7623T>A",
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        {
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          "intron_rank": 1,
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          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.141-7623T>A",
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        },
        {
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          "consequences": [
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          ],
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          "intron_rank": 1,
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          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.33-7623T>A",
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          "transcript": "NM_001267614.1",
          "protein_id": "NP_001254543.1",
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          "cdna_start": null,
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          "cdna_length": 7389,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
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          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 5,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.33-7623T>A",
          "hgvs_p": null,
          "transcript": "ENST00000546300.5",
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          "transcript_support_level": 2,
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          "cds_length": 1248,
          "cdna_start": null,
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          "cdna_length": 7388,
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        },
        {
          "aa_ref": null,
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          "protein_coding": true,
          "strand": false,
          "consequences": [
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          "exon_count": 6,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
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          "hgvs_c": "c.-22-7623T>A",
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          "transcript": "NM_001267612.2",
          "protein_id": "NP_001254541.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": 397,
          "cds_start": -4,
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          "cdna_start": null,
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          "cdna_length": 8257,
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        },
        {
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          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 5,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-22-7623T>A",
          "hgvs_p": null,
          "transcript": "NM_001349635.1",
          "protein_id": "NP_001336564.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 397,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1194,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7708,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "GPR161",
          "gene_hgnc_id": 23694,
          "hgvs_c": "c.-22-7623T>A",
          "hgvs_p": null,
          "transcript": "ENST00000367836.5",
          "protein_id": "ENSP00000356810.1",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 397,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1194,
          "cdna_start": null,
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          "cdna_length": 1983,
          "mane_select": null,
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          "feature": null
        },
        {
          "aa_ref": null,
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          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000306311",
          "gene_hgnc_id": null,
          "hgvs_c": "n.210-2476A>T",
          "hgvs_p": null,
          "transcript": "ENST00000816909.1",
          "protein_id": null,
          "transcript_support_level": null,
          "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": 509,
          "mane_select": null,
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          "biotype": null,
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        }
      ],
      "gene_symbol": "GPR161",
      "gene_hgnc_id": 23694,
      "dbsnp": "rs200635937",
      "frequency_reference_population": 0.0016100423,
      "hom_count_reference_population": 50,
      "allele_count_reference_population": 2596,
      "gnomad_exomes_af": 0.00166818,
      "gnomad_genomes_af": 0.00105187,
      "gnomad_exomes_ac": 2436,
      "gnomad_genomes_ac": 160,
      "gnomad_exomes_homalt": 49,
      "gnomad_genomes_homalt": 1,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.008036792278289795,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.484,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.0743,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.34,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.037,
      "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": -9,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BS1_Supporting,BS2",
      "acmg_by_gene": [
        {
          "score": -9,
          "benign_score": 9,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BS1_Supporting",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000682931.1",
          "gene_symbol": "GPR161",
          "hgnc_id": 23694,
          "effects": [
            "5_prime_UTR_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.-5T>A",
          "hgvs_p": null
        },
        {
          "score": -9,
          "benign_score": 9,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BS1_Supporting",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000816909.1",
          "gene_symbol": "ENSG00000306311",
          "hgnc_id": null,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.210-2476A>T",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "Medulloblastoma,Pituitary stalk interruption syndrome,not provided",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "LP:1 US:1 B:2",
      "phenotype_combined": "not provided|Pituitary stalk interruption syndrome|Medulloblastoma",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "custom_annotations": null
    }
  ],
  "message": null
}