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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: 12-80352336-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=80352336&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "12",
"pos": 80352336,
"ref": "T",
"alt": "C",
"effect": "synonymous_variant",
"transcript": "ENST00000547103.7",
"consequences": [
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 45,
"exon_rank_end": null,
"exon_count": 59,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5307T>C",
"hgvs_p": "p.Tyr1769Tyr",
"transcript": "NM_001378609.3",
"protein_id": "NP_001365538.2",
"transcript_support_level": null,
"aa_start": 1769,
"aa_end": null,
"aa_length": 2353,
"cds_start": 5307,
"cds_end": null,
"cds_length": 7062,
"cdna_start": 5395,
"cdna_end": null,
"cdna_length": 9982,
"mane_select": "ENST00000547103.7",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 45,
"exon_rank_end": null,
"exon_count": 59,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5307T>C",
"hgvs_p": "p.Tyr1769Tyr",
"transcript": "ENST00000547103.7",
"protein_id": "ENSP00000447211.2",
"transcript_support_level": 5,
"aa_start": 1769,
"aa_end": null,
"aa_length": 2353,
"cds_start": 5307,
"cds_end": null,
"cds_length": 7062,
"cdna_start": 5395,
"cdna_end": null,
"cdna_length": 9982,
"mane_select": "NM_001378609.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 48,
"exon_rank_end": null,
"exon_count": 62,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5307T>C",
"hgvs_p": "p.Tyr1769Tyr",
"transcript": "NM_001378610.3",
"protein_id": "NP_001365539.2",
"transcript_support_level": null,
"aa_start": 1769,
"aa_end": null,
"aa_length": 2353,
"cds_start": 5307,
"cds_end": null,
"cds_length": 7062,
"cdna_start": 5967,
"cdna_end": null,
"cdna_length": 10554,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 45,
"exon_rank_end": null,
"exon_count": 59,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5307T>C",
"hgvs_p": "p.Tyr1769Tyr",
"transcript": "NM_173591.7",
"protein_id": "NP_775862.4",
"transcript_support_level": null,
"aa_start": 1769,
"aa_end": null,
"aa_length": 2353,
"cds_start": 5307,
"cds_end": null,
"cds_length": 7062,
"cdna_start": 5385,
"cdna_end": null,
"cdna_length": 9972,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 49,
"exon_rank_end": null,
"exon_count": 63,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5172T>C",
"hgvs_p": "p.Tyr1724Tyr",
"transcript": "NM_001368062.3",
"protein_id": "NP_001354991.2",
"transcript_support_level": null,
"aa_start": 1724,
"aa_end": null,
"aa_length": 2308,
"cds_start": 5172,
"cds_end": null,
"cds_length": 6927,
"cdna_start": 6272,
"cdna_end": null,
"cdna_length": 10859,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 49,
"exon_rank_end": null,
"exon_count": 63,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5172T>C",
"hgvs_p": "p.Tyr1724Tyr",
"transcript": "ENST00000646859.1",
"protein_id": "ENSP00000496036.1",
"transcript_support_level": null,
"aa_start": 1724,
"aa_end": null,
"aa_length": 2308,
"cds_start": 5172,
"cds_end": null,
"cds_length": 6927,
"cdna_start": 6272,
"cdna_end": null,
"cdna_length": 9939,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.606T>C",
"hgvs_p": "p.Tyr202Tyr",
"transcript": "ENST00000298820.7",
"protein_id": "ENSP00000298820.3",
"transcript_support_level": 5,
"aa_start": 202,
"aa_end": null,
"aa_length": 751,
"cds_start": 606,
"cds_end": null,
"cds_length": 2256,
"cdna_start": 608,
"cdna_end": null,
"cdna_length": 3289,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 48,
"exon_rank_end": null,
"exon_count": 62,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5331T>C",
"hgvs_p": "p.Tyr1777Tyr",
"transcript": "XM_005268802.4",
"protein_id": "XP_005268859.1",
"transcript_support_level": null,
"aa_start": 1777,
"aa_end": null,
"aa_length": 2361,
"cds_start": 5331,
"cds_end": null,
"cds_length": 7086,
"cdna_start": 6087,
"cdna_end": null,
"cdna_length": 10674,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 42,
"exon_rank_end": null,
"exon_count": 56,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5226T>C",
"hgvs_p": "p.Tyr1742Tyr",
"transcript": "XM_011538193.2",
"protein_id": "XP_011536495.2",
"transcript_support_level": null,
"aa_start": 1742,
"aa_end": null,
"aa_length": 2326,
"cds_start": 5226,
"cds_end": null,
"cds_length": 6981,
"cdna_start": 5282,
"cdna_end": null,
"cdna_length": 9869,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 42,
"exon_rank_end": null,
"exon_count": 56,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"hgvs_c": "c.5178T>C",
"hgvs_p": "p.Tyr1726Tyr",
"transcript": "XM_011538192.3",
"protein_id": "XP_011536494.1",
"transcript_support_level": null,
"aa_start": 1726,
"aa_end": null,
"aa_length": 2310,
"cds_start": 5178,
"cds_end": null,
"cds_length": 6933,
"cdna_start": 5293,
"cdna_end": null,
"cdna_length": 9880,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "OTOGL",
"gene_hgnc_id": 26901,
"dbsnp": "rs183555119",
"frequency_reference_population": 0.0027505283,
"hom_count_reference_population": 14,
"allele_count_reference_population": 4434,
"gnomad_exomes_af": 0.00280874,
"gnomad_genomes_af": 0.00219267,
"gnomad_exomes_ac": 4100,
"gnomad_genomes_ac": 334,
"gnomad_exomes_homalt": 12,
"gnomad_genomes_homalt": 2,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.43799999356269836,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "REVEL",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.438,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.55,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.215,
"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": -17,
"acmg_classification": "Benign",
"acmg_criteria": "BP6_Very_Strong,BP7,BS1,BS2",
"acmg_by_gene": [
{
"score": -17,
"benign_score": 17,
"pathogenic_score": 0,
"criteria": [
"BP6_Very_Strong",
"BP7",
"BS1",
"BS2"
],
"verdict": "Benign",
"transcript": "ENST00000547103.7",
"gene_symbol": "OTOGL",
"hgnc_id": 26901,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.5307T>C",
"hgvs_p": "p.Tyr1769Tyr"
}
],
"clinvar_disease": "not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:3",
"phenotype_combined": "not specified|not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}