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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: 10-1041317-T-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=10&pos=1041317&ref=T&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "10",
      "pos": 1041317,
      "ref": "T",
      "alt": "G",
      "effect": "missense_variant",
      "transcript": "NM_004508.4",
      "consequences": [
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.725A>C",
          "hgvs_p": "p.Lys242Thr",
          "transcript": "NM_004508.4",
          "protein_id": "NP_004499.2",
          "transcript_support_level": null,
          "aa_start": 242,
          "aa_end": null,
          "aa_length": 284,
          "cds_start": 725,
          "cds_end": null,
          "cds_length": 855,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000381344.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_004508.4"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.725A>C",
          "hgvs_p": "p.Lys242Thr",
          "transcript": "ENST00000381344.8",
          "protein_id": "ENSP00000370748.3",
          "transcript_support_level": 1,
          "aa_start": 242,
          "aa_end": null,
          "aa_length": 284,
          "cds_start": 725,
          "cds_end": null,
          "cds_length": 855,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_004508.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000381344.8"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "n.652A>C",
          "hgvs_p": null,
          "transcript": "ENST00000491735.1",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000491735.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "IDI2-AS1",
          "gene_hgnc_id": 30885,
          "hgvs_c": "n.518-2212T>G",
          "hgvs_p": null,
          "transcript": "ENST00000420381.5",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000420381.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "IDI2-AS1",
          "gene_hgnc_id": 30885,
          "hgvs_c": "n.475-2212T>G",
          "hgvs_p": null,
          "transcript": "ENST00000428780.5",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000428780.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "IDI2-AS1",
          "gene_hgnc_id": 30885,
          "hgvs_c": "n.1199-2212T>G",
          "hgvs_p": null,
          "transcript": "ENST00000437374.6",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000437374.6"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.557A>C",
          "hgvs_p": "p.Lys186Thr",
          "transcript": "NM_001317955.2",
          "protein_id": "NP_001304884.1",
          "transcript_support_level": null,
          "aa_start": 186,
          "aa_end": null,
          "aa_length": 228,
          "cds_start": 557,
          "cds_end": null,
          "cds_length": 687,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001317955.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.557A>C",
          "hgvs_p": "p.Lys186Thr",
          "transcript": "NM_001317956.2",
          "protein_id": "NP_001304885.1",
          "transcript_support_level": null,
          "aa_start": 186,
          "aa_end": null,
          "aa_length": 228,
          "cds_start": 557,
          "cds_end": null,
          "cds_length": 687,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001317956.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.557A>C",
          "hgvs_p": "p.Lys186Thr",
          "transcript": "ENST00000695775.1",
          "protein_id": "ENSP00000512165.1",
          "transcript_support_level": null,
          "aa_start": 186,
          "aa_end": null,
          "aa_length": 228,
          "cds_start": 557,
          "cds_end": null,
          "cds_length": 687,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000695775.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.554A>C",
          "hgvs_p": "p.Lys185Thr",
          "transcript": "ENST00000429642.2",
          "protein_id": "ENSP00000401879.2",
          "transcript_support_level": 5,
          "aa_start": 185,
          "aa_end": null,
          "aa_length": 227,
          "cds_start": 554,
          "cds_end": null,
          "cds_length": 684,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000429642.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.467A>C",
          "hgvs_p": "p.Lys156Thr",
          "transcript": "NM_001317957.2",
          "protein_id": "NP_001304886.1",
          "transcript_support_level": null,
          "aa_start": 156,
          "aa_end": null,
          "aa_length": 198,
          "cds_start": 467,
          "cds_end": null,
          "cds_length": 597,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001317957.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.557A>C",
          "hgvs_p": "p.Lys186Thr",
          "transcript": "XM_047425176.1",
          "protein_id": "XP_047281132.1",
          "transcript_support_level": null,
          "aa_start": 186,
          "aa_end": null,
          "aa_length": 228,
          "cds_start": 557,
          "cds_end": null,
          "cds_length": 687,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047425176.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.518A>C",
          "hgvs_p": "p.Lys173Thr",
          "transcript": "XM_017016191.3",
          "protein_id": "XP_016871680.1",
          "transcript_support_level": null,
          "aa_start": 173,
          "aa_end": null,
          "aa_length": 215,
          "cds_start": 518,
          "cds_end": null,
          "cds_length": 648,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017016191.3"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.446A>C",
          "hgvs_p": "p.Lys149Thr",
          "transcript": "XM_024447979.2",
          "protein_id": "XP_024303747.1",
          "transcript_support_level": null,
          "aa_start": 149,
          "aa_end": null,
          "aa_length": 191,
          "cds_start": 446,
          "cds_end": null,
          "cds_length": 576,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_024447979.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "c.434A>C",
          "hgvs_p": "p.Lys145Thr",
          "transcript": "XM_024447980.2",
          "protein_id": "XP_024303748.1",
          "transcript_support_level": null,
          "aa_start": 145,
          "aa_end": null,
          "aa_length": 187,
          "cds_start": 434,
          "cds_end": null,
          "cds_length": 564,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_024447980.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "n.808A>C",
          "hgvs_p": null,
          "transcript": "NR_134300.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "NR_134300.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "IDI1",
          "gene_hgnc_id": 5387,
          "hgvs_c": "n.915A>C",
          "hgvs_p": null,
          "transcript": "NR_134301.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "NR_134301.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "IDI2-AS1",
          "gene_hgnc_id": 30885,
          "hgvs_c": "n.405-2212T>G",
          "hgvs_p": null,
          "transcript": "ENST00000656158.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
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          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000656158.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "IDI2-AS1",
          "gene_hgnc_id": 30885,
          "hgvs_c": "n.311-2212T>G",
          "hgvs_p": null,
          "transcript": "ENST00000665330.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000665330.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "IDI2-AS1",
          "gene_hgnc_id": 30885,
          "hgvs_c": "n.492-2212T>G",
          "hgvs_p": null,
          "transcript": "ENST00000724166.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000724166.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 3,
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          "biotype": "pseudogene",
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        {
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          "protein_coding": false,
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          "exon_count": 3,
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          "gene_symbol": "IDI2-AS1",
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          "hgvs_c": "n.253-2212T>G",
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        {
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          "gene_symbol": "IDI2-AS1",
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          "hgvs_c": "n.549-2212T>G",
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        {
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          "gene_symbol": "IDI2-AS1",
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          "biotype": "pseudogene",
          "feature": "NR_027709.1"
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      ],
      "gene_symbol": "IDI1",
      "gene_hgnc_id": 5387,
      "dbsnp": "rs137970796",
      "frequency_reference_population": 0.0012993789,
      "hom_count_reference_population": 3,
      "allele_count_reference_population": 2097,
      "gnomad_exomes_af": 0.00137046,
      "gnomad_genomes_af": 0.000617243,
      "gnomad_exomes_ac": 2003,
      "gnomad_genomes_ac": 94,
      "gnomad_exomes_homalt": 3,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.046453773975372314,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.177,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1201,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.42,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 4.544,
      "phylop100way_prediction": "Uncertain_significance",
      "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": -8,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BS2",
      "acmg_by_gene": [
        {
          "score": -8,
          "benign_score": 8,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "NM_004508.4",
          "gene_symbol": "IDI1",
          "hgnc_id": 5387,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.725A>C",
          "hgvs_p": "p.Lys242Thr"
        },
        {
          "score": -8,
          "benign_score": 8,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000420381.5",
          "gene_symbol": "IDI2-AS1",
          "hgnc_id": 30885,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.518-2212T>G",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "not specified",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "not specified",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}
For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.