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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: 11-5948026-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=5948026&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "11",
"pos": 5948026,
"ref": "G",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_001003443.3",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OR56A3",
"gene_hgnc_id": 14786,
"hgvs_c": "c.680G>T",
"hgvs_p": "p.Arg227Leu",
"transcript": "NM_001003443.3",
"protein_id": "NP_001003443.2",
"transcript_support_level": null,
"aa_start": 227,
"aa_end": null,
"aa_length": 315,
"cds_start": 680,
"cds_end": null,
"cds_length": 948,
"cdna_start": 1117,
"cdna_end": null,
"cdna_length": 4438,
"mane_select": "ENST00000641160.1",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OR56A3",
"gene_hgnc_id": 14786,
"hgvs_c": "c.680G>T",
"hgvs_p": "p.Arg227Leu",
"transcript": "ENST00000641160.1",
"protein_id": "ENSP00000493059.1",
"transcript_support_level": null,
"aa_start": 227,
"aa_end": null,
"aa_length": 315,
"cds_start": 680,
"cds_end": null,
"cds_length": 948,
"cdna_start": 1117,
"cdna_end": null,
"cdna_length": 4438,
"mane_select": "NM_001003443.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OR56A3",
"gene_hgnc_id": 14786,
"hgvs_c": "c.680G>T",
"hgvs_p": "p.Arg227Leu",
"transcript": "ENST00000641905.1",
"protein_id": "ENSP00000493319.1",
"transcript_support_level": null,
"aa_start": 227,
"aa_end": null,
"aa_length": 315,
"cds_start": 680,
"cds_end": null,
"cds_length": 948,
"cdna_start": 1274,
"cdna_end": null,
"cdna_length": 4595,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OR56A3",
"gene_hgnc_id": 14786,
"hgvs_c": "c.680G>T",
"hgvs_p": "p.Arg227Leu",
"transcript": "XM_047426926.1",
"protein_id": "XP_047282882.1",
"transcript_support_level": null,
"aa_start": 227,
"aa_end": null,
"aa_length": 315,
"cds_start": 680,
"cds_end": null,
"cds_length": 948,
"cdna_start": 1117,
"cdna_end": null,
"cdna_length": 2145,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "OR56A3",
"gene_hgnc_id": 14786,
"hgvs_c": "n.402-661G>T",
"hgvs_p": null,
"transcript": "ENST00000641878.1",
"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": 3062,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "OR56A3",
"gene_hgnc_id": 14786,
"dbsnp": "rs767579946",
"frequency_reference_population": 0.0000065665054,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": null,
"gnomad_genomes_af": 0.00000656651,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.31893524527549744,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.07999999821186066,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.106,
"revel_prediction": "Benign",
"alphamissense_score": 0.1936,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.44,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -1.52,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.08,
"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": 1,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4",
"acmg_by_gene": [
{
"score": 1,
"benign_score": 1,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001003443.3",
"gene_symbol": "OR56A3",
"hgnc_id": 14786,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.680G>T",
"hgvs_p": "p.Arg227Leu"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}