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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: 12-120994314-G-GC (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=120994314&ref=G&alt=GC&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "12",
"pos": 120994314,
"ref": "G",
"alt": "GC",
"effect": "frameshift_variant",
"transcript": "NM_001306179.2",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "NM_000545.8",
"protein_id": "NP_000536.6",
"transcript_support_level": null,
"aa_start": 291,
"aa_end": null,
"aa_length": 631,
"cds_start": 873,
"cds_end": null,
"cds_length": 1896,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000257555.11",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000545.8"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "ENST00000257555.11",
"protein_id": "ENSP00000257555.5",
"transcript_support_level": 1,
"aa_start": 291,
"aa_end": null,
"aa_length": 631,
"cds_start": 873,
"cds_end": null,
"cds_length": 1896,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_000545.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000257555.11"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "ENST00000544413.2",
"protein_id": "ENSP00000438804.1",
"transcript_support_level": 1,
"aa_start": 291,
"aa_end": null,
"aa_length": 638,
"cds_start": 873,
"cds_end": null,
"cds_length": 1917,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000544413.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.685dupC",
"hgvs_p": null,
"transcript": "ENST00000538646.5",
"protein_id": "ENSP00000443964.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000538646.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.*312dupC",
"hgvs_p": null,
"transcript": "ENST00000540108.1",
"protein_id": "ENSP00000445445.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000540108.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.*312dupC",
"hgvs_p": null,
"transcript": "ENST00000540108.1",
"protein_id": "ENSP00000445445.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000540108.1"
},
{
"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": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.43-3169dupC",
"hgvs_p": null,
"transcript": "ENST00000535955.5",
"protein_id": null,
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000535955.5"
},
{
"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": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.191-3169dupC",
"hgvs_p": null,
"transcript": "ENST00000538626.2",
"protein_id": null,
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000538626.2"
},
{
"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": 6,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.713+616dupC",
"hgvs_p": null,
"transcript": "ENST00000541924.5",
"protein_id": "ENSP00000440361.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000541924.5"
},
{
"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": 1,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.73-2295dupC",
"hgvs_p": null,
"transcript": "ENST00000544574.5",
"protein_id": "ENSP00000438565.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000544574.5"
},
{
"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": 10,
"intron_rank": 4,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.750+122dupC",
"hgvs_p": null,
"transcript": "ENST00000560968.6",
"protein_id": "ENSP00000453965.2",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000560968.6"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "ENST00000541395.5",
"protein_id": "ENSP00000443112.1",
"transcript_support_level": 2,
"aa_start": 291,
"aa_end": null,
"aa_length": 662,
"cds_start": 873,
"cds_end": null,
"cds_length": 1989,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000541395.5"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "NM_001306179.2",
"protein_id": "NP_001293108.2",
"transcript_support_level": null,
"aa_start": 291,
"aa_end": null,
"aa_length": 638,
"cds_start": 873,
"cds_end": null,
"cds_length": 1917,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001306179.2"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "NM_001406915.1",
"protein_id": "NP_001393844.1",
"transcript_support_level": null,
"aa_start": 291,
"aa_end": null,
"aa_length": 567,
"cds_start": 873,
"cds_end": null,
"cds_length": 1704,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001406915.1"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.653dupC",
"hgvs_p": "p.Gly219fs",
"transcript": "ENST00000886299.1",
"protein_id": "ENSP00000556358.1",
"transcript_support_level": null,
"aa_start": 218,
"aa_end": null,
"aa_length": 558,
"cds_start": 654,
"cds_end": null,
"cds_length": 1677,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000886299.1"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "ENST00000400024.6",
"protein_id": "ENSP00000476181.1",
"transcript_support_level": 2,
"aa_start": 291,
"aa_end": null,
"aa_length": 542,
"cds_start": 873,
"cds_end": null,
"cds_length": 1629,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000400024.6"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.485dupC",
"hgvs_p": "p.Gly163fs",
"transcript": "ENST00000886300.1",
"protein_id": "ENSP00000556359.1",
"transcript_support_level": null,
"aa_start": 162,
"aa_end": null,
"aa_length": 502,
"cds_start": 486,
"cds_end": null,
"cds_length": 1509,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000886300.1"
},
{
"aa_ref": "P",
"aa_alt": "P?",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"frameshift_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs",
"transcript": "XM_024449168.2",
"protein_id": "XP_024304936.1",
"transcript_support_level": null,
"aa_start": 291,
"aa_end": null,
"aa_length": 662,
"cds_start": 873,
"cds_end": null,
"cds_length": 1989,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_024449168.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"hgvs_c": "n.1007dupC",
"hgvs_p": null,
"transcript": "ENST00000402929.5",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000402929.5"
}
],
"gene_symbol": "HNF1A",
"gene_hgnc_id": 11621,
"dbsnp": "rs587776825",
"frequency_reference_population": 0.00005235661,
"hom_count_reference_population": 0,
"allele_count_reference_population": 84,
"gnomad_exomes_af": 0.0000571344,
"gnomad_genomes_af": 0.00000659344,
"gnomad_exomes_ac": 83,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": null,
"computational_prediction_selected": null,
"computational_source_selected": null,
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": null,
"bayesdelnoaf_prediction": null,
"phylop100way_score": 1.876,
"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": 14,
"acmg_classification": "Pathogenic",
"acmg_criteria": "PP1_Strong,PVS1,PS2_Moderate",
"acmg_by_gene": [
{
"score": 14,
"benign_score": 0,
"pathogenic_score": 14,
"criteria": [
"PP1_Strong",
"PVS1",
"PS2_Moderate"
],
"verdict": "Pathogenic",
"transcript": "NM_001306179.2",
"gene_symbol": "HNF1A",
"hgnc_id": 11621,
"effects": [
"frameshift_variant"
],
"inheritance_mode": "AD,Unknown",
"hgvs_c": "c.872dupC",
"hgvs_p": "p.Gly292fs"
}
],
"clinvar_disease": " familial,Clear cell carcinoma of kidney,DiGeorge syndrome,Diabetes mellitus type 1,Hepatic adenomas,Maturity onset diabetes mellitus in young,Maturity-onset diabetes of the young type 3,Monogenic diabetes,Type 1 diabetes mellitus 20,not provided",
"clinvar_classification": "Pathogenic",
"clinvar_review_status": "reviewed by expert panel",
"clinvar_submissions_summary": "P:12",
"phenotype_combined": "Maturity-onset diabetes of the young type 3|Clear cell carcinoma of kidney|Hepatic adenomas, familial|Diabetes mellitus type 1|not provided|Type 1 diabetes mellitus 20|Maturity onset diabetes mellitus in young|Monogenic diabetes|DiGeorge syndrome",
"pathogenicity_classification_combined": "Pathogenic",
"custom_annotations": null
}
],
"message": null
}