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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: 16-1335649-A-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=1335649&ref=A&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "16",
      "pos": 1335649,
      "ref": "A",
      "alt": "T",
      "effect": "intron_variant",
      "transcript": "NM_003933.5",
      "consequences": [
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "NM_001199097.2",
          "protein_id": "NP_001186026.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1152,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3459,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000426824.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001199097.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "ENST00000426824.8",
          "protein_id": "ENSP00000407242.4",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1152,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3459,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001199097.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000426824.8"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.95+893A>T",
          "hgvs_p": null,
          "transcript": "ENST00000324385.9",
          "protein_id": "ENSP00000324510.5",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1187,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3564,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000324385.9"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "ENST00000397488.6",
          "protein_id": "ENSP00000380625.2",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1169,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3510,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000397488.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.95+893A>T",
          "hgvs_p": null,
          "transcript": "NM_003933.5",
          "protein_id": "NP_003924.2",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1187,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3564,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_003933.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "NM_001286464.2",
          "protein_id": "NP_001273393.2",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1169,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3510,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001286464.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+893A>T",
          "hgvs_p": null,
          "transcript": "ENST00000956656.1",
          "protein_id": "ENSP00000626715.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1169,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3510,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000956656.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 35,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-331-430A>T",
          "hgvs_p": null,
          "transcript": "ENST00000858415.1",
          "protein_id": "ENSP00000528474.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1152,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3459,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000858415.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "ENST00000711105.1",
          "protein_id": "ENSP00000518584.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 1131,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 3396,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000711105.1"
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": 1,
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          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "NM_001199098.2",
          "protein_id": "NP_001186027.1",
          "transcript_support_level": null,
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          "aa_length": 1129,
          "cds_start": null,
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          "cdna_start": null,
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          "mane_select": null,
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        {
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          "strand": true,
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          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "c.-11+1900A>T",
          "hgvs_p": null,
          "transcript": "ENST00000562208.5",
          "protein_id": "ENSP00000458134.1",
          "transcript_support_level": 2,
          "aa_start": null,
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          "aa_length": 1129,
          "cds_start": null,
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          "cdna_start": null,
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        {
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          "canonical": false,
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          "cds_start": null,
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        {
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        {
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          "gene_symbol": "BAIAP3",
          "gene_hgnc_id": 948,
          "hgvs_c": "n.-11+1900A>T",
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          "transcript": "ENST00000564213.2",
          "protein_id": "ENSP00000518583.1",
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "nonsense_mediated_decay",
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        },
        {
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          ],
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      ],
      "gene_symbol": "BAIAP3",
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      "dbsnp": "rs4984814",
      "frequency_reference_population": null,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.8999999761581421,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0.019999999552965164,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
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      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.9,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -1.825,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.02,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
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      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -2,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong",
      "acmg_by_gene": [
        {
          "score": -2,
          "benign_score": 4,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong"
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          "verdict": "Likely_benign",
          "transcript": "NM_003933.5",
          "gene_symbol": "BAIAP3",
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          "effects": [
            "intron_variant"
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          "inheritance_mode": "AR",
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      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}