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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: 12-56343443-G-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=56343443&ref=G&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "12",
      "pos": 56343443,
      "ref": "G",
      "alt": "C",
      "effect": "synonymous_variant",
      "transcript": "NM_005419.4",
      "consequences": [
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2502C>G",
          "hgvs_p": "p.Val834Val",
          "transcript": "NM_005419.4",
          "protein_id": "NP_005410.1",
          "transcript_support_level": null,
          "aa_start": 834,
          "aa_end": null,
          "aa_length": 851,
          "cds_start": 2502,
          "cds_end": null,
          "cds_length": 2556,
          "cdna_start": 2559,
          "cdna_end": null,
          "cdna_length": 4405,
          "mane_select": "ENST00000314128.9",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2502C>G",
          "hgvs_p": "p.Val834Val",
          "transcript": "ENST00000314128.9",
          "protein_id": "ENSP00000315768.4",
          "transcript_support_level": 1,
          "aa_start": 834,
          "aa_end": null,
          "aa_length": 851,
          "cds_start": 2502,
          "cds_end": null,
          "cds_length": 2556,
          "cdna_start": 2559,
          "cdna_end": null,
          "cdna_length": 4405,
          "mane_select": "NM_005419.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.1432C>G",
          "hgvs_p": null,
          "transcript": "ENST00000556539.5",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3278,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2490C>G",
          "hgvs_p": "p.Val830Val",
          "transcript": "NM_198332.2",
          "protein_id": "NP_938146.1",
          "transcript_support_level": null,
          "aa_start": 830,
          "aa_end": null,
          "aa_length": 847,
          "cds_start": 2490,
          "cds_end": null,
          "cds_length": 2544,
          "cdna_start": 2547,
          "cdna_end": null,
          "cdna_length": 4393,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2490C>G",
          "hgvs_p": "p.Val830Val",
          "transcript": "ENST00000557235.5",
          "protein_id": "ENSP00000450751.1",
          "transcript_support_level": 2,
          "aa_start": 830,
          "aa_end": null,
          "aa_length": 847,
          "cds_start": 2490,
          "cds_end": null,
          "cds_length": 2544,
          "cdna_start": 2566,
          "cdna_end": null,
          "cdna_length": 3073,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2481C>G",
          "hgvs_p": "p.Val827Val",
          "transcript": "NM_001385114.1",
          "protein_id": "NP_001372043.1",
          "transcript_support_level": null,
          "aa_start": 827,
          "aa_end": null,
          "aa_length": 844,
          "cds_start": 2481,
          "cds_end": null,
          "cds_length": 2535,
          "cdna_start": 2538,
          "cdna_end": null,
          "cdna_length": 4384,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2469C>G",
          "hgvs_p": "p.Val823Val",
          "transcript": "NM_001385110.1",
          "protein_id": "NP_001372039.1",
          "transcript_support_level": null,
          "aa_start": 823,
          "aa_end": null,
          "aa_length": 840,
          "cds_start": 2469,
          "cds_end": null,
          "cds_length": 2523,
          "cdna_start": 2526,
          "cdna_end": null,
          "cdna_length": 4372,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2460C>G",
          "hgvs_p": "p.Val820Val",
          "transcript": "NM_001385115.1",
          "protein_id": "NP_001372044.1",
          "transcript_support_level": null,
          "aa_start": 820,
          "aa_end": null,
          "aa_length": 837,
          "cds_start": 2460,
          "cds_end": null,
          "cds_length": 2514,
          "cdna_start": 2517,
          "cdna_end": null,
          "cdna_length": 4363,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2403C>G",
          "hgvs_p": "p.Val801Val",
          "transcript": "NM_001385111.1",
          "protein_id": "NP_001372040.1",
          "transcript_support_level": null,
          "aa_start": 801,
          "aa_end": null,
          "aa_length": 818,
          "cds_start": 2403,
          "cds_end": null,
          "cds_length": 2457,
          "cdna_start": 2460,
          "cdna_end": null,
          "cdna_length": 4306,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2403C>G",
          "hgvs_p": "p.Val801Val",
          "transcript": "ENST00000651915.1",
          "protein_id": "ENSP00000498876.1",
          "transcript_support_level": null,
          "aa_start": 801,
          "aa_end": null,
          "aa_length": 818,
          "cds_start": 2403,
          "cds_end": null,
          "cds_length": 2457,
          "cdna_start": 2484,
          "cdna_end": null,
          "cdna_length": 4319,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 22,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2370C>G",
          "hgvs_p": "p.Val790Val",
          "transcript": "ENST00000698186.1",
          "protein_id": "ENSP00000513598.1",
          "transcript_support_level": null,
          "aa_start": 790,
          "aa_end": null,
          "aa_length": 807,
          "cds_start": 2370,
          "cds_end": null,
          "cds_length": 2424,
          "cdna_start": 2523,
          "cdna_end": null,
          "cdna_length": 4360,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2526C>G",
          "hgvs_p": "p.Val842Val",
          "transcript": "XM_011538697.3",
          "protein_id": "XP_011536999.1",
          "transcript_support_level": null,
          "aa_start": 842,
          "aa_end": null,
          "aa_length": 859,
          "cds_start": 2526,
          "cds_end": null,
          "cds_length": 2580,
          "cdna_start": 2583,
          "cdna_end": null,
          "cdna_length": 4429,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.2514C>G",
          "hgvs_p": "p.Val838Val",
          "transcript": "XM_011538698.4",
          "protein_id": "XP_011537000.1",
          "transcript_support_level": null,
          "aa_start": 838,
          "aa_end": null,
          "aa_length": 855,
          "cds_start": 2514,
          "cds_end": null,
          "cds_length": 2568,
          "cdna_start": 2571,
          "cdna_end": null,
          "cdna_length": 4417,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "c.1557C>G",
          "hgvs_p": "p.Val519Val",
          "transcript": "XM_047429469.1",
          "protein_id": "XP_047285425.1",
          "transcript_support_level": null,
          "aa_start": 519,
          "aa_end": null,
          "aa_length": 536,
          "cds_start": 1557,
          "cds_end": null,
          "cds_length": 1611,
          "cdna_start": 1654,
          "cdna_end": null,
          "cdna_length": 3500,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.2385C>G",
          "hgvs_p": null,
          "transcript": "ENST00000555488.2",
          "protein_id": null,
          "transcript_support_level": 3,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 4215,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 22,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.3274C>G",
          "hgvs_p": null,
          "transcript": "ENST00000556140.6",
          "protein_id": null,
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 4419,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 22,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.*1936C>G",
          "hgvs_p": null,
          "transcript": "ENST00000650805.1",
          "protein_id": "ENSP00000498710.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4465,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 22,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.3155C>G",
          "hgvs_p": null,
          "transcript": "ENST00000651078.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
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          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4985,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.*2176C>G",
          "hgvs_p": null,
          "transcript": "ENST00000651301.1",
          "protein_id": "ENSP00000498470.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 4670,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.1237C>G",
          "hgvs_p": null,
          "transcript": "ENST00000651339.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2050,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "STAT2",
          "gene_hgnc_id": 11363,
          "hgvs_c": "n.2891C>G",
          "hgvs_p": null,
          "transcript": "ENST00000651805.1",
          "protein_id": null,
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      ],
      "gene_symbol": "STAT2",
      "gene_hgnc_id": 11363,
      "dbsnp": "rs750862737",
      "frequency_reference_population": 0.0000020521632,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 3,
      "gnomad_exomes_af": 0.00000205216,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 3,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.8199999928474426,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.82,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.184,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -5,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong,BP6_Moderate,BP7",
      "acmg_by_gene": [
        {
          "score": -5,
          "benign_score": 7,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong",
            "BP6_Moderate",
            "BP7"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_005419.4",
          "gene_symbol": "STAT2",
          "hgnc_id": 11363,
          "effects": [
            "synonymous_variant"
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          "inheritance_mode": "AR",
          "hgvs_c": "c.2502C>G",
          "hgvs_p": "p.Val834Val"
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      ],
      "clinvar_disease": "Primary immunodeficiency with post-measles-mumps-rubella vaccine viral infection",
      "clinvar_classification": "Likely benign",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "LB:1",
      "phenotype_combined": "Primary immunodeficiency with post-measles-mumps-rubella vaccine viral infection",
      "pathogenicity_classification_combined": "Likely benign",
      "custom_annotations": null
    }
  ],
  "message": null
}