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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: 6-43009328-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=43009328&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "message": null,
  "variants": [
    {
      "acmg_by_gene": [
        {
          "benign_score": 0,
          "criteria": [
            "PS3",
            "PM2",
            "PP3_Moderate",
            "PP5_Very_Strong"
          ],
          "effects": [
            "missense_variant"
          ],
          "gene_symbol": "PPP2R5D",
          "hgnc_id": 9312,
          "hgvs_c": "c.1258G>A",
          "hgvs_p": "p.Glu420Lys",
          "inheritance_mode": "AD",
          "pathogenic_score": 16,
          "score": 16,
          "transcript": "NM_006245.4",
          "verdict": "Pathogenic"
        }
      ],
      "acmg_classification": "Pathogenic",
      "acmg_criteria": "PS3,PM2,PP3_Moderate,PP5_Very_Strong",
      "acmg_score": 16,
      "allele_count_reference_population": 0,
      "alphamissense_prediction": null,
      "alphamissense_score": 0.9996,
      "alt": "A",
      "apogee2_prediction": null,
      "apogee2_score": null,
      "bayesdelnoaf_prediction": "Pathogenic",
      "bayesdelnoaf_score": 0.26,
      "chr": "6",
      "clinvar_classification": "Pathogenic",
      "clinvar_disease": "Hogue-Janssens syndrome 1,Inborn genetic diseases,not provided",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "P:4 O:1",
      "computational_prediction_selected": "Pathogenic",
      "computational_score_selected": 0.9212287664413452,
      "computational_source_selected": "MetaRNN",
      "consequences": [
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 602,
          "aa_ref": "E",
          "aa_start": 420,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2973,
          "cdna_start": 1366,
          "cds_end": null,
          "cds_length": 1809,
          "cds_start": 1258,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "NM_006245.4",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1258G>A",
          "hgvs_p": "p.Glu420Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": "ENST00000485511.6",
          "protein_coding": true,
          "protein_id": "NP_006236.1",
          "strand": true,
          "transcript": "NM_006245.4",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 602,
          "aa_ref": "E",
          "aa_start": 420,
          "biotype": "protein_coding",
          "canonical": true,
          "cdna_end": null,
          "cdna_length": 2973,
          "cdna_start": 1366,
          "cds_end": null,
          "cds_length": 1809,
          "cds_start": 1258,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000485511.6",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1258G>A",
          "hgvs_p": "p.Glu420Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": "NM_006245.4",
          "protein_coding": true,
          "protein_id": "ENSP00000417963.1",
          "strand": true,
          "transcript": "ENST00000485511.6",
          "transcript_support_level": 1
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 570,
          "aa_ref": "E",
          "aa_start": 388,
          "biotype": "protein_coding",
          "canonical": true,
          "cdna_end": null,
          "cdna_length": 2894,
          "cdna_start": 1287,
          "cds_end": null,
          "cds_length": 1713,
          "cds_start": 1162,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000394110.7",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1162G>A",
          "hgvs_p": "p.Glu388Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000377669.3",
          "strand": true,
          "transcript": "ENST00000394110.7",
          "transcript_support_level": 1
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 503,
          "aa_ref": "E",
          "aa_start": 321,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2567,
          "cdna_start": 962,
          "cds_end": null,
          "cds_length": 1512,
          "cds_start": 961,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 13,
          "exon_rank": 9,
          "exon_rank_end": null,
          "feature": "ENST00000470467.5",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.961G>A",
          "hgvs_p": "p.Glu321Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000419756.1",
          "strand": true,
          "transcript": "ENST00000470467.5",
          "transcript_support_level": 1
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 496,
          "aa_ref": "E",
          "aa_start": 314,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 1558,
          "cdna_start": 966,
          "cds_end": null,
          "cds_length": 1491,
          "cds_start": 940,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 14,
          "exon_rank": 10,
          "exon_rank_end": null,
          "feature": "ENST00000461010.5",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.940G>A",
          "hgvs_p": "p.Glu314Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000420674.1",
          "strand": true,
          "transcript": "ENST00000461010.5",
          "transcript_support_level": 1
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 601,
          "aa_ref": "E",
          "aa_start": 419,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2964,
          "cdna_start": 1357,
          "cds_end": null,
          "cds_length": 1806,
          "cds_start": 1255,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000879148.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1255G>A",
          "hgvs_p": "p.Glu419Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000549207.1",
          "strand": true,
          "transcript": "ENST00000879148.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 600,
          "aa_ref": "E",
          "aa_start": 418,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2975,
          "cdna_start": 1364,
          "cds_end": null,
          "cds_length": 1803,
          "cds_start": 1252,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000935957.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1252G>A",
          "hgvs_p": "p.Glu418Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000606016.1",
          "strand": true,
          "transcript": "ENST00000935957.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 594,
          "aa_ref": "E",
          "aa_start": 412,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2963,
          "cdna_start": 1358,
          "cds_end": null,
          "cds_length": 1785,
          "cds_start": 1234,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000472118.5",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1234G>A",
          "hgvs_p": "p.Glu412Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000420550.1",
          "strand": true,
          "transcript": "ENST00000472118.5",
          "transcript_support_level": 5
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 571,
          "aa_ref": "E",
          "aa_start": 389,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2881,
          "cdna_start": 1276,
          "cds_end": null,
          "cds_length": 1716,
          "cds_start": 1165,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000949509.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1165G>A",
          "hgvs_p": "p.Glu389Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000619568.1",
          "strand": true,
          "transcript": "ENST00000949509.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 570,
          "aa_ref": "E",
          "aa_start": 388,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2877,
          "cdna_start": 1270,
          "cds_end": null,
          "cds_length": 1713,
          "cds_start": 1162,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "NM_180976.3",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1162G>A",
          "hgvs_p": "p.Glu388Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "NP_851307.1",
          "strand": true,
          "transcript": "NM_180976.3",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 569,
          "aa_ref": "E",
          "aa_start": 387,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2906,
          "cdna_start": 1299,
          "cds_end": null,
          "cds_length": 1710,
          "cds_start": 1159,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000879146.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1159G>A",
          "hgvs_p": "p.Glu387Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000549205.1",
          "strand": true,
          "transcript": "ENST00000879146.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 563,
          "aa_ref": "E",
          "aa_start": 420,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2860,
          "cdna_start": 1366,
          "cds_end": null,
          "cds_length": 1692,
          "cds_start": 1258,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 15,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000879147.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1258G>A",
          "hgvs_p": "p.Glu420Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000549206.1",
          "strand": true,
          "transcript": "ENST00000879147.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 552,
          "aa_ref": "E",
          "aa_start": 370,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2821,
          "cdna_start": 1220,
          "cds_end": null,
          "cds_length": 1659,
          "cds_start": 1108,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 15,
          "exon_rank": 11,
          "exon_rank_end": null,
          "feature": "ENST00000949510.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1108G>A",
          "hgvs_p": "p.Glu370Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000619569.1",
          "strand": true,
          "transcript": "ENST00000949510.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 531,
          "aa_ref": "E",
          "aa_start": 388,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2762,
          "cdna_start": 1274,
          "cds_end": null,
          "cds_length": 1596,
          "cds_start": 1162,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 15,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "ENST00000949508.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1162G>A",
          "hgvs_p": "p.Glu388Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000619567.1",
          "strand": true,
          "transcript": "ENST00000949508.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 521,
          "aa_ref": "E",
          "aa_start": 339,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2730,
          "cdna_start": 1125,
          "cds_end": null,
          "cds_length": 1566,
          "cds_start": 1015,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 15,
          "exon_rank": 11,
          "exon_rank_end": null,
          "feature": "ENST00000935958.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.1015G>A",
          "hgvs_p": "p.Glu339Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000606017.1",
          "strand": true,
          "transcript": "ENST00000935958.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 496,
          "aa_ref": "E",
          "aa_start": 314,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2655,
          "cdna_start": 1048,
          "cds_end": null,
          "cds_length": 1491,
          "cds_start": 940,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 14,
          "exon_rank": 10,
          "exon_rank_end": null,
          "feature": "NM_180977.3",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.940G>A",
          "hgvs_p": "p.Glu314Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "NP_851308.1",
          "strand": true,
          "transcript": "NM_180977.3",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 463,
          "aa_ref": "E",
          "aa_start": 281,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2554,
          "cdna_start": 949,
          "cds_end": null,
          "cds_length": 1392,
          "cds_start": 841,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 14,
          "exon_rank": 10,
          "exon_rank_end": null,
          "feature": "ENST00000949511.1",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.841G>A",
          "hgvs_p": "p.Glu281Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "ENSP00000619570.1",
          "strand": true,
          "transcript": "ENST00000949511.1",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 451,
          "aa_ref": "E",
          "aa_start": 269,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 2990,
          "cdna_start": 1383,
          "cds_end": null,
          "cds_length": 1356,
          "cds_start": 805,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 16,
          "exon_rank": 12,
          "exon_rank_end": null,
          "feature": "NM_001270476.2",
          "gene_hgnc_id": 9312,
          "gene_symbol": "PPP2R5D",
          "hgvs_c": "c.805G>A",
          "hgvs_p": "p.Glu269Lys",
          "intron_rank": null,
          "intron_rank_end": null,
          "mane_plus": null,
          "mane_select": null,
          "protein_coding": true,
          "protein_id": "NP_001257405.1",
          "strand": true,
          "transcript": "NM_001270476.2",
          "transcript_support_level": null
        },
        {
          "aa_alt": "K",
          "aa_end": null,
          "aa_length": 152,
          "aa_ref": "E",
          "aa_start": 41,
          "biotype": "protein_coding",
          "canonical": false,
          "cdna_end": null,
          "cdna_length": 462,
          "cdna_start": 122,
          "cds_end": null,
          "cds_length": 461,
          "cds_start": 121,
          "consequences": [
            "missense_variant"
          ],
          "exon_count": 5,
          "exon_rank": 2,
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          "feature": "ENST00000486843.1",
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}
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