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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: 11-62856025-G-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=62856025&ref=G&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "11",
      "pos": 62856025,
      "ref": "G",
      "alt": "C",
      "effect": "non_coding_transcript_exon_variant",
      "transcript": "ENST00000680002.1",
      "consequences": [
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "n.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000680002.1",
          "protein_id": "ENSP00000506366.1",
          "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": 2491,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000680729.1",
          "protein_id": "ENSP00000505639.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 603,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1812,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2265,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "5_prime_UTR_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "n.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000680002.1",
          "protein_id": "ENSP00000506366.1",
          "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": 2491,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "SNHG1",
          "gene_hgnc_id": 32688,
          "hgvs_c": "n.196+224C>G",
          "hgvs_p": null,
          "transcript": "ENST00000742439.1",
          "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": 1290,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000377890.6",
          "protein_id": "ENSP00000367122.2",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 630,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1893,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2161,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000377889.6",
          "protein_id": "ENSP00000367121.2",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 568,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1707,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1993,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SNHG1",
          "gene_hgnc_id": 32688,
          "hgvs_c": "n.-158C>G",
          "hgvs_p": null,
          "transcript": "ENST00000537925.5",
          "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": 1487,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SNHG1",
          "gene_hgnc_id": 32688,
          "hgvs_c": "n.-136C>G",
          "hgvs_p": null,
          "transcript": "ENST00000540725.7",
          "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": 1408,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000538084.2",
          "protein_id": "ENSP00000440001.2",
          "transcript_support_level": 3,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 661,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1986,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2334,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000681569.1",
          "protein_id": "ENSP00000506498.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 654,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1965,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2313,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "NM_001012662.3",
          "protein_id": "NP_001012680.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 631,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1896,
          "cdna_start": null,
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          "cdna_length": 2224,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC3A2",
          "gene_hgnc_id": 11026,
          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "ENST00000377891.6",
          "protein_id": "ENSP00000367123.2",
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          "aa_start": null,
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          "cds_start": -4,
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        {
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          "canonical": false,
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          "consequences": [
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          ],
          "exon_rank": null,
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          "intron_rank": null,
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          "gene_symbol": "SLC3A2",
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          "hgvs_c": "c.-245G>C",
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          "transcript": "NM_002394.6",
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        {
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          ],
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          "intron_rank": null,
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          "gene_symbol": "SLC3A2",
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          "hgvs_c": "c.-245G>C",
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          "transcript": "ENST00000681467.1",
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          "cdna_start": null,
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        {
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          ],
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          "intron_rank": null,
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          "gene_symbol": "SLC3A2",
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          ],
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          "intron_rank": null,
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          "gene_symbol": "SLC3A2",
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          "hgvs_c": "c.-245G>C",
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          "transcript": "ENST00000535296.5",
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        {
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          ],
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          "intron_rank": null,
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          "gene_symbol": "SLC3A2",
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          "hgvs_c": "c.-245G>C",
          "hgvs_p": null,
          "transcript": "NM_001012664.3",
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        {
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          "strand": true,
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          ],
          "exon_rank": null,
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          "exon_count": 5,
          "intron_rank": null,
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          "gene_symbol": "SNHG1",
          "gene_hgnc_id": 32688,
          "hgvs_c": "n.-202C>G",
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          "gene_symbol": "SNHG1",
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          ],
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          "gene_symbol": "SNHG1",
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          "hgvs_c": "n.-144C>G",
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          "transcript": "ENST00000537068.5",
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        },
        {
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          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SNHG1",
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          "hgvs_c": "n.-136C>G",
          "hgvs_p": null,
          "transcript": "ENST00000537869.8",
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      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.78,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.545,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": null,
      "spliceai_max_prediction": null,
      "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": "ENST00000680002.1",
          "gene_symbol": "SLC3A2",
          "hgnc_id": 11026,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "n.-245G>C",
          "hgvs_p": null
        },
        {
          "score": -4,
          "benign_score": 4,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000742439.1",
          "gene_symbol": "SNHG1",
          "hgnc_id": 32688,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.196+224C>G",
          "hgvs_p": null
        },
        {
          "score": -4,
          "benign_score": 4,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000741088.1",
          "gene_symbol": "STX5-DT",
          "hgnc_id": 55488,
          "effects": [
            "downstream_gene_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.*202G>C",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}