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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: 3-52634806-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=52634806&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "3",
      "pos": 52634806,
      "ref": "T",
      "alt": "C",
      "effect": "5_prime_UTR_premature_start_codon_gain_variant",
      "transcript": "NM_001405608.1",
      "consequences": [
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "NM_001405607.1",
          "protein_id": "NP_001392536.1",
          "transcript_support_level": null,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1704,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 5115,
          "cdna_start": 1277,
          "cdna_end": null,
          "cdna_length": 7991,
          "mane_select": "ENST00000707071.1",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405607.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000707071.1",
          "protein_id": "ENSP00000516722.1",
          "transcript_support_level": null,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1704,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 5115,
          "cdna_start": 1277,
          "cdna_end": null,
          "cdna_length": 7991,
          "mane_select": "NM_001405607.1",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000707071.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000296302.11",
          "protein_id": "ENSP00000296302.7",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1689,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 5070,
          "cdna_start": 1099,
          "cdna_end": null,
          "cdna_length": 5145,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000296302.11"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000409114.7",
          "protein_id": "ENSP00000386643.3",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1652,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 4959,
          "cdna_start": 1100,
          "cdna_end": null,
          "cdna_length": 5015,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409114.7"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000409057.5",
          "protein_id": "ENSP00000386593.1",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1634,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 4905,
          "cdna_start": 1100,
          "cdna_end": null,
          "cdna_length": 4980,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409057.5"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000410007.5",
          "protein_id": "ENSP00000386529.1",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1609,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 4830,
          "cdna_start": 1100,
          "cdna_end": null,
          "cdna_length": 4905,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000410007.5"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1001A>G",
          "hgvs_p": "p.Tyr334Cys",
          "transcript": "ENST00000356770.8",
          "protein_id": "ENSP00000349213.4",
          "transcript_support_level": 1,
          "aa_start": 334,
          "aa_end": null,
          "aa_length": 1602,
          "cds_start": 1001,
          "cds_end": null,
          "cds_length": 4809,
          "cdna_start": 1004,
          "cdna_end": null,
          "cdna_length": 7523,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000356770.8"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000409767.5",
          "protein_id": "ENSP00000386601.1",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1597,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 4794,
          "cdna_start": 1100,
          "cdna_end": null,
          "cdna_length": 4849,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409767.5"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000337303.8",
          "protein_id": "ENSP00000338302.4",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1582,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 4749,
          "cdna_start": 1100,
          "cdna_end": null,
          "cdna_length": 4825,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000337303.8"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000394830.7",
          "protein_id": "ENSP00000378307.3",
          "transcript_support_level": 1,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1582,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 4749,
          "cdna_start": 1197,
          "cdna_end": null,
          "cdna_length": 5071,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000394830.7"
        },
        {
          "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": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "n.1097A>G",
          "hgvs_p": null,
          "transcript": "ENST00000412587.5",
          "protein_id": "ENSP00000404579.1",
          "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": 4766,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000412587.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_premature_start_codon_gain_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.-41A>G",
          "hgvs_p": null,
          "transcript": "NM_001405608.1",
          "protein_id": "NP_001392537.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1179,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3540,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4779,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405608.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_premature_start_codon_gain_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.-486A>G",
          "hgvs_p": null,
          "transcript": "NM_001405625.1",
          "protein_id": "NP_001392554.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1142,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3429,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7794,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405625.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_premature_start_codon_gain_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.-886A>G",
          "hgvs_p": null,
          "transcript": "NM_001405596.1",
          "protein_id": "NP_001392525.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 998,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2997,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7855,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405596.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "5_prime_UTR_premature_start_codon_gain_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.-886A>G",
          "hgvs_p": null,
          "transcript": "NM_001405566.1",
          "protein_id": "NP_001392495.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 946,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2841,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 7699,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405566.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "NM_001405601.1",
          "protein_id": "NP_001392530.1",
          "transcript_support_level": null,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1704,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 5115,
          "cdna_start": 1274,
          "cdna_end": null,
          "cdna_length": 7988,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405601.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "ENST00000875042.1",
          "protein_id": "ENSP00000545101.1",
          "transcript_support_level": null,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1704,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 5115,
          "cdna_start": 1327,
          "cdna_end": null,
          "cdna_length": 8041,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000875042.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1124A>G",
          "hgvs_p": "p.Tyr375Cys",
          "transcript": "NM_001405598.1",
          "protein_id": "NP_001392527.1",
          "transcript_support_level": null,
          "aa_start": 375,
          "aa_end": null,
          "aa_length": 1698,
          "cds_start": 1124,
          "cds_end": null,
          "cds_length": 5097,
          "cdna_start": 1304,
          "cdna_end": null,
          "cdna_length": 7973,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405598.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "NM_001405570.1",
          "protein_id": "NP_001392499.1",
          "transcript_support_level": null,
          "aa_start": 366,
          "aa_end": null,
          "aa_length": 1691,
          "cds_start": 1097,
          "cds_end": null,
          "cds_length": 5076,
          "cdna_start": 1274,
          "cdna_end": null,
          "cdna_length": 7949,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001405570.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PBRM1",
          "gene_hgnc_id": 30064,
          "hgvs_c": "c.1097A>G",
          "hgvs_p": "p.Tyr366Cys",
          "transcript": "NM_001394867.1",
          "protein_id": "NP_001381796.1",
          "transcript_support_level": null,
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          "transcript_support_level": null,
          "aa_start": null,
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          "cds_length": 2841,
          "cdna_start": null,
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          "cdna_length": 7699,
          "mane_select": null,
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          "biotype": "protein_coding",
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        {
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          "exon_count": 19,
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          "transcript": "ENST00000923716.1",
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          "cdna_length": 6393,
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          "biotype": "protein_coding",
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        {
          "aa_ref": null,
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          "protein_coding": false,
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          "consequences": [
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        {
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          "exon_count": 32,
          "intron_rank": null,
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          "gene_symbol": "PBRM1",
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          "hgvs_c": "n.1274A>G",
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          "transcript": "NR_175959.1",
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          "mane_select": null,
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          "biotype": "pseudogene",
          "feature": "NR_175959.1"
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      ],
      "gene_symbol": "PBRM1",
      "gene_hgnc_id": 30064,
      "dbsnp": "rs373477703",
      "frequency_reference_population": 0.0000663403,
      "hom_count_reference_population": 0,
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      "gnomad_exomes_af": 0.0000670917,
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      "gnomad_exomes_ac": 98,
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      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.026843369007110596,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.183,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.2422,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.14,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 5.842,
      "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_001405608.1",
          "gene_symbol": "PBRM1",
          "hgnc_id": 30064,
          "effects": [
            "5_prime_UTR_premature_start_codon_gain_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.-41A>G",
          "hgvs_p": null
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      ],
      "clinvar_disease": "not specified",
      "clinvar_classification": "not provided",
      "clinvar_review_status": "no classification provided",
      "clinvar_submissions_summary": "O:1",
      "phenotype_combined": "not specified",
      "pathogenicity_classification_combined": "not provided",
      "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.