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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: 12-95533182-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=95533182&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "12",
      "pos": 95533182,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_032147.5",
      "consequences": [
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "NM_032147.5",
          "protein_id": "NP_115523.2",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 712,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2139,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000258499.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_032147.5"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000258499.8",
          "protein_id": "ENSP00000258499.3",
          "transcript_support_level": 1,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 712,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2139,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_032147.5",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000258499.8"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000393091.6",
          "protein_id": "ENSP00000376806.2",
          "transcript_support_level": 1,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 712,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2139,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000393091.6"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000537435.2",
          "protein_id": "ENSP00000442629.2",
          "transcript_support_level": 1,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 712,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2139,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000537435.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916592.1",
          "protein_id": "ENSP00000586651.1",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 807,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2424,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916592.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916615.1",
          "protein_id": "ENSP00000586674.1",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 807,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2424,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916615.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916591.1",
          "protein_id": "ENSP00000586650.1",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 782,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2349,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916591.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916605.1",
          "protein_id": "ENSP00000586664.1",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 782,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2349,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916605.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916595.1",
          "protein_id": "ENSP00000586654.1",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 743,
          "cds_start": 1075,
          "cds_end": null,
          "cds_length": 2232,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916595.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916602.1",
          "protein_id": "ENSP00000586661.1",
          "transcript_support_level": null,
          "aa_start": 359,
          "aa_end": null,
          "aa_length": 743,
          "cds_start": 1075,
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          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
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          "strand": false,
          "consequences": [
            "missense_variant"
          ],
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          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "USP44",
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          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916616.1",
          "protein_id": "ENSP00000586675.1",
          "transcript_support_level": null,
          "aa_start": 359,
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          "aa_length": 743,
          "cds_start": 1075,
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          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
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        {
          "aa_ref": "G",
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          "consequences": [
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          ],
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          "intron_rank": null,
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          "gene_symbol": "USP44",
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          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916618.1",
          "protein_id": "ENSP00000586677.1",
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        {
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          "protein_coding": true,
          "strand": false,
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          ],
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          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916590.1",
          "protein_id": "ENSP00000586649.1",
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        {
          "aa_ref": "G",
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          "strand": false,
          "consequences": [
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          ],
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          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916606.1",
          "protein_id": "ENSP00000586665.1",
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        {
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          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "NM_001042403.3",
          "protein_id": "NP_001035862.1",
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          "biotype": "protein_coding",
          "feature": "NM_001042403.3"
        },
        {
          "aa_ref": "G",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
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          "exon_rank": 2,
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          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "NM_001278393.2",
          "protein_id": "NP_001265322.1",
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        {
          "aa_ref": "G",
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          "exon_rank": 3,
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          "exon_count": 7,
          "intron_rank": null,
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          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "NM_001347936.2",
          "protein_id": "NP_001334865.1",
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        {
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          "gene_symbol": "USP44",
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          "transcript": "NM_001347937.2",
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        },
        {
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          "gene_symbol": "USP44",
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          "transcript": "ENST00000876803.1",
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          "biotype": "protein_coding",
          "feature": "ENST00000876803.1"
        },
        {
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "USP44",
          "gene_hgnc_id": 20064,
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg",
          "transcript": "ENST00000916587.1",
          "protein_id": "ENSP00000586646.1",
          "transcript_support_level": null,
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          "gene_symbol": "USP44",
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        {
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        {
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          "gene_symbol": "USP44",
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          "hgvs_c": "n.1350G>A",
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          "transcript": "XR_944757.2",
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          "cdna_length": null,
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          "biotype": "pseudogene",
          "feature": "XR_944757.2"
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      ],
      "gene_symbol": "USP44",
      "gene_hgnc_id": 20064,
      "dbsnp": "rs148476030",
      "frequency_reference_population": 0.00012453315,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 201,
      "gnomad_exomes_af": 0.000130655,
      "gnomad_genomes_af": 0.0000657186,
      "gnomad_exomes_ac": 191,
      "gnomad_genomes_ac": 10,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.7202063798904419,
      "computational_prediction_selected": "Uncertain_significance",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.353,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.22,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.07,
      "bayesdelnoaf_prediction": "Uncertain_significance",
      "phylop100way_score": 7.347,
      "phylop100way_prediction": "Uncertain_significance",
      "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": 0,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "",
      "acmg_by_gene": [
        {
          "score": 0,
          "benign_score": 0,
          "pathogenic_score": 0,
          "criteria": [],
          "verdict": "Uncertain_significance",
          "transcript": "NM_032147.5",
          "gene_symbol": "USP44",
          "hgnc_id": 20064,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.1075G>A",
          "hgvs_p": "p.Gly359Arg"
        }
      ],
      "clinvar_disease": "not specified",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "not specified",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}