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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: 2-216138178-C-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=216138178&ref=C&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 216138178,
      "ref": "C",
      "alt": "G",
      "effect": "splice_region_variant,synonymous_variant",
      "transcript": "NM_021141.4",
      "consequences": [
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "NM_021141.4",
          "protein_id": "NP_066964.1",
          "transcript_support_level": null,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 732,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2199,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000392132.7",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_021141.4"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000392132.7",
          "protein_id": "ENSP00000375977.2",
          "transcript_support_level": 1,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 732,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2199,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_021141.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000392132.7"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "n.1883C>G",
          "hgvs_p": null,
          "transcript": "ENST00000460284.5",
          "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": "retained_intron",
          "feature": "ENST00000460284.5"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000947464.1",
          "protein_id": "ENSP00000617523.1",
          "transcript_support_level": null,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 754,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2265,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000947464.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000939185.1",
          "protein_id": "ENSP00000609244.1",
          "transcript_support_level": null,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 740,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2223,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939185.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1365C>G",
          "hgvs_p": "p.Thr455Thr",
          "transcript": "ENST00000947463.1",
          "protein_id": "ENSP00000617522.1",
          "transcript_support_level": null,
          "aa_start": 455,
          "aa_end": null,
          "aa_length": 740,
          "cds_start": 1365,
          "cds_end": null,
          "cds_length": 2223,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000947463.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000392133.7",
          "protein_id": "ENSP00000375978.3",
          "transcript_support_level": 5,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 732,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2199,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000392133.7"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000939180.1",
          "protein_id": "ENSP00000609239.1",
          "transcript_support_level": null,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 732,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2199,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939180.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000939184.1",
          "protein_id": "ENSP00000609243.1",
          "transcript_support_level": null,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 732,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2199,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939184.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1335C>G",
          "hgvs_p": "p.Thr445Thr",
          "transcript": "ENST00000939181.1",
          "protein_id": "ENSP00000609240.1",
          "transcript_support_level": null,
          "aa_start": 445,
          "aa_end": null,
          "aa_length": 730,
          "cds_start": 1335,
          "cds_end": null,
          "cds_length": 2193,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939181.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1332C>G",
          "hgvs_p": "p.Thr444Thr",
          "transcript": "ENST00000893695.1",
          "protein_id": "ENSP00000563754.1",
          "transcript_support_level": null,
          "aa_start": 444,
          "aa_end": null,
          "aa_length": 729,
          "cds_start": 1332,
          "cds_end": null,
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          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000893695.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1329C>G",
          "hgvs_p": "p.Thr443Thr",
          "transcript": "ENST00000939183.1",
          "protein_id": "ENSP00000609242.1",
          "transcript_support_level": null,
          "aa_start": 443,
          "aa_end": null,
          "aa_length": 728,
          "cds_start": 1329,
          "cds_end": null,
          "cds_length": 2187,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939183.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000893697.1",
          "protein_id": "ENSP00000563756.1",
          "transcript_support_level": null,
          "aa_start": 447,
          "aa_end": null,
          "aa_length": 724,
          "cds_start": 1341,
          "cds_end": null,
          "cds_length": 2175,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000893697.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1245C>G",
          "hgvs_p": "p.Thr415Thr",
          "transcript": "ENST00000947465.1",
          "protein_id": "ENSP00000617524.1",
          "transcript_support_level": null,
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          "cds_start": 1245,
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          "cdna_start": null,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000947465.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1227C>G",
          "hgvs_p": "p.Thr409Thr",
          "transcript": "ENST00000893694.1",
          "protein_id": "ENSP00000563753.1",
          "transcript_support_level": null,
          "aa_start": 409,
          "aa_end": null,
          "aa_length": 694,
          "cds_start": 1227,
          "cds_end": null,
          "cds_length": 2085,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000893694.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1218C>G",
          "hgvs_p": "p.Thr406Thr",
          "transcript": "ENST00000947462.1",
          "protein_id": "ENSP00000617521.1",
          "transcript_support_level": null,
          "aa_start": 406,
          "aa_end": null,
          "aa_length": 691,
          "cds_start": 1218,
          "cds_end": null,
          "cds_length": 2076,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000947462.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1149C>G",
          "hgvs_p": "p.Thr383Thr",
          "transcript": "ENST00000893696.1",
          "protein_id": "ENSP00000563755.1",
          "transcript_support_level": null,
          "aa_start": 383,
          "aa_end": null,
          "aa_length": 668,
          "cds_start": 1149,
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          "cds_length": 2007,
          "cdna_start": null,
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          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000893696.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr",
          "transcript": "ENST00000893692.1",
          "protein_id": "ENSP00000563751.1",
          "transcript_support_level": null,
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          "aa_end": null,
          "aa_length": 663,
          "cds_start": 1341,
          "cds_end": null,
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          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000893692.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "XRCC5",
          "gene_hgnc_id": 12833,
          "hgvs_c": "c.1026C>G",
          "hgvs_p": "p.Thr342Thr",
          "transcript": "ENST00000939186.1",
          "protein_id": "ENSP00000609245.1",
          "transcript_support_level": null,
          "aa_start": 342,
          "aa_end": null,
          "aa_length": 627,
          "cds_start": 1026,
          "cds_end": null,
          "cds_length": 1884,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939186.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
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          "intron_rank": 12,
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          "aa_length": 725,
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          "cds_length": 2178,
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        {
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          "transcript": "ENST00000893691.1",
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        {
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            "intron_variant"
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          "exon_count": 3,
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          "gene_symbol": "XRCC5",
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          "hgvs_c": "c.21+28721C>G",
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          "transcript": "ENST00000893698.1",
          "protein_id": "ENSP00000563757.1",
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          "cds_length": 111,
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          "biotype": "protein_coding",
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        {
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          "protein_coding": false,
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            "splice_region_variant",
            "non_coding_transcript_exon_variant"
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          "exon_count": 6,
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          "gene_symbol": "XRCC5",
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          "hgvs_c": "n.475C>G",
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          "transcript": "ENST00000471649.1",
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          "transcript_support_level": 2,
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          "biotype": "pseudogene",
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      ],
      "gene_symbol": "XRCC5",
      "gene_hgnc_id": 12833,
      "dbsnp": "rs374258250",
      "frequency_reference_population": 0.000013142504,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 2,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": 0.0000131425,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": 2,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.5299999713897705,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0.014000000432133675,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "dbscSNV1_RF",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.53,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.232,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.05,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": 0.0000655847199113317,
      "dbscsnv_ada_prediction": "Benign",
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -3,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong,BP7",
      "acmg_by_gene": [
        {
          "score": -3,
          "benign_score": 5,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong",
            "BP7"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_021141.4",
          "gene_symbol": "XRCC5",
          "hgnc_id": 12833,
          "effects": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.1341C>G",
          "hgvs_p": "p.Thr447Thr"
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}