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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: 3-87259909-A-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=87259909&ref=A&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "3",
"pos": 87259909,
"ref": "A",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_001122757.3",
"consequences": [
{
"aa_ref": "H",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"hgvs_c": "c.861T>A",
"hgvs_p": "p.His287Gln",
"transcript": "NM_000306.4",
"protein_id": "NP_000297.1",
"transcript_support_level": null,
"aa_start": 287,
"aa_end": null,
"aa_length": 291,
"cds_start": 861,
"cds_end": null,
"cds_length": 876,
"cdna_start": 983,
"cdna_end": null,
"cdna_length": 1488,
"mane_select": "ENST00000350375.7",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000306.4"
},
{
"aa_ref": "H",
"aa_alt": "Q",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"hgvs_c": "c.861T>A",
"hgvs_p": "p.His287Gln",
"transcript": "ENST00000350375.7",
"protein_id": "ENSP00000263781.2",
"transcript_support_level": 1,
"aa_start": 287,
"aa_end": null,
"aa_length": 291,
"cds_start": 861,
"cds_end": null,
"cds_length": 876,
"cdna_start": 983,
"cdna_end": null,
"cdna_length": 1488,
"mane_select": "NM_000306.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000350375.7"
},
{
"aa_ref": "H",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"hgvs_c": "c.939T>A",
"hgvs_p": "p.His313Gln",
"transcript": "NM_001122757.3",
"protein_id": "NP_001116229.1",
"transcript_support_level": null,
"aa_start": 313,
"aa_end": null,
"aa_length": 317,
"cds_start": 939,
"cds_end": null,
"cds_length": 954,
"cdna_start": 1061,
"cdna_end": null,
"cdna_length": 1566,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001122757.3"
},
{
"aa_ref": "H",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"hgvs_c": "c.939T>A",
"hgvs_p": "p.His313Gln",
"transcript": "ENST00000344265.8",
"protein_id": "ENSP00000342931.3",
"transcript_support_level": 5,
"aa_start": 313,
"aa_end": null,
"aa_length": 317,
"cds_start": 939,
"cds_end": null,
"cds_length": 954,
"cdna_start": 1061,
"cdna_end": null,
"cdna_length": 1566,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000344265.8"
},
{
"aa_ref": "H",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"hgvs_c": "c.636T>A",
"hgvs_p": "p.His212Gln",
"transcript": "ENST00000561167.5",
"protein_id": "ENSP00000454072.1",
"transcript_support_level": 5,
"aa_start": 212,
"aa_end": null,
"aa_length": 215,
"cds_start": 636,
"cds_end": null,
"cds_length": 650,
"cdna_start": 636,
"cdna_end": null,
"cdna_length": 650,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000561167.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"hgvs_c": "c.*125T>A",
"hgvs_p": null,
"transcript": "ENST00000560656.1",
"protein_id": "ENSP00000452610.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 169,
"cds_start": null,
"cds_end": null,
"cds_length": 510,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 647,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000560656.1"
}
],
"gene_symbol": "POU1F1",
"gene_hgnc_id": 9210,
"dbsnp": "rs752117643",
"frequency_reference_population": 6.8422196e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84222e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.3002622127532959,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.459,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.09,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.11,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.176,
"phylop100way_prediction": "Benign",
"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": 2,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,PP2,BP4",
"acmg_by_gene": [
{
"score": 2,
"benign_score": 1,
"pathogenic_score": 3,
"criteria": [
"PM2",
"PP2",
"BP4"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001122757.3",
"gene_symbol": "POU1F1",
"hgnc_id": 9210,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD,AR,SD",
"hgvs_c": "c.939T>A",
"hgvs_p": "p.His313Gln"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}