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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: 11-2572933-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=2572933&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "11",
"pos": 2572933,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000155840.12",
"consequences": [
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.868G>A",
"hgvs_p": "p.Glu290Lys",
"transcript": "NM_000218.3",
"protein_id": "NP_000209.2",
"transcript_support_level": null,
"aa_start": 290,
"aa_end": null,
"aa_length": 676,
"cds_start": 868,
"cds_end": null,
"cds_length": 2031,
"cdna_start": 959,
"cdna_end": null,
"cdna_length": 3224,
"mane_select": "ENST00000155840.12",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.868G>A",
"hgvs_p": "p.Glu290Lys",
"transcript": "ENST00000155840.12",
"protein_id": "ENSP00000155840.2",
"transcript_support_level": 1,
"aa_start": 290,
"aa_end": null,
"aa_length": 676,
"cds_start": 868,
"cds_end": null,
"cds_length": 2031,
"cdna_start": 959,
"cdna_end": null,
"cdna_length": 3224,
"mane_select": "NM_000218.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.487G>A",
"hgvs_p": "p.Glu163Lys",
"transcript": "ENST00000335475.6",
"protein_id": "ENSP00000334497.5",
"transcript_support_level": 1,
"aa_start": 163,
"aa_end": null,
"aa_length": 549,
"cds_start": 487,
"cds_end": null,
"cds_length": 1650,
"cdna_start": 756,
"cdna_end": null,
"cdna_length": 2907,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.868G>A",
"hgvs_p": "p.Glu290Lys",
"transcript": "NM_001406836.1",
"protein_id": "NP_001393765.1",
"transcript_support_level": null,
"aa_start": 290,
"aa_end": null,
"aa_length": 644,
"cds_start": 868,
"cds_end": null,
"cds_length": 1935,
"cdna_start": 959,
"cdna_end": null,
"cdna_length": 3128,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.598G>A",
"hgvs_p": "p.Glu200Lys",
"transcript": "NM_001406837.1",
"protein_id": "NP_001393766.1",
"transcript_support_level": null,
"aa_start": 200,
"aa_end": null,
"aa_length": 586,
"cds_start": 598,
"cds_end": null,
"cds_length": 1761,
"cdna_start": 1051,
"cdna_end": null,
"cdna_length": 3316,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.607G>A",
"hgvs_p": "p.Glu203Lys",
"transcript": "ENST00000496887.7",
"protein_id": "ENSP00000434560.2",
"transcript_support_level": 5,
"aa_start": 203,
"aa_end": null,
"aa_length": 557,
"cds_start": 607,
"cds_end": null,
"cds_length": 1674,
"cdna_start": 639,
"cdna_end": null,
"cdna_length": 2694,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.487G>A",
"hgvs_p": "p.Glu163Lys",
"transcript": "NM_181798.2",
"protein_id": "NP_861463.1",
"transcript_support_level": null,
"aa_start": 163,
"aa_end": null,
"aa_length": 549,
"cds_start": 487,
"cds_end": null,
"cds_length": 1650,
"cdna_start": 756,
"cdna_end": null,
"cdna_length": 3021,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "n.*834G>A",
"hgvs_p": null,
"transcript": "ENST00000713724.1",
"protein_id": "ENSP00000519028.1",
"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": 3499,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "n.*834G>A",
"hgvs_p": null,
"transcript": "ENST00000713724.1",
"protein_id": "ENSP00000519028.1",
"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": 3499,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 15,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.780+824G>A",
"hgvs_p": null,
"transcript": "ENST00000713725.1",
"protein_id": "ENSP00000519029.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 629,
"cds_start": -4,
"cds_end": null,
"cds_length": 1890,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 3083,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 11,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.478-10502G>A",
"hgvs_p": null,
"transcript": "NM_001406838.1",
"protein_id": "NP_001393767.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 496,
"cds_start": -4,
"cds_end": null,
"cds_length": 1491,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2684,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 11,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"hgvs_c": "c.478-10502G>A",
"hgvs_p": null,
"transcript": "ENST00000646564.2",
"protein_id": "ENSP00000495806.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 428,
"cds_start": -4,
"cds_end": null,
"cds_length": 1287,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1820,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "KCNQ1",
"gene_hgnc_id": 6294,
"dbsnp": "rs199473464",
"frequency_reference_population": 0.000014252994,
"hom_count_reference_population": 0,
"allele_count_reference_population": 23,
"gnomad_exomes_af": 0.000010948,
"gnomad_genomes_af": 0.00004598,
"gnomad_exomes_ac": 16,
"gnomad_genomes_ac": 7,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.0019013998098671436,
"computational_prediction_selected": "Benign",
"computational_source_selected": "CardioboostArm",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.683,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.115,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.37,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 4.228,
"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": 3,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM1,PP2",
"acmg_by_gene": [
{
"score": 3,
"benign_score": 0,
"pathogenic_score": 3,
"criteria": [
"PM1",
"PP2"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000155840.12",
"gene_symbol": "KCNQ1",
"hgnc_id": 6294,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD,AR",
"hgvs_c": "c.868G>A",
"hgvs_p": "p.Glu290Lys"
}
],
"clinvar_disease": " 3, familial,Atrial fibrillation,Beckwith-Wiedemann syndrome,Cardiac arrhythmia,Cardiovascular phenotype,Congenital long QT syndrome,Jervell and Lange-Nielsen syndrome 1,Long QT syndrome,Long QT syndrome 1,Short QT syndrome type 2,not provided,not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "US:11 O:1",
"phenotype_combined": "Congenital long QT syndrome|Long QT syndrome 1|Jervell and Lange-Nielsen syndrome 1|not specified|Long QT syndrome|Short QT syndrome type 2|Atrial fibrillation, familial, 3|Cardiac arrhythmia|Cardiovascular phenotype|not provided|Atrial fibrillation, familial, 3;Beckwith-Wiedemann syndrome;Jervell and Lange-Nielsen syndrome 1;Short QT syndrome type 2;Long QT syndrome 1",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}