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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: 2-27226130-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=27226130&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 27226130,
"ref": "G",
"alt": "A",
"effect": "splice_acceptor_variant,intron_variant",
"transcript": "ENST00000264705.9",
"consequences": [
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_acceptor_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "c.1843-1G>A",
"hgvs_p": null,
"transcript": "NM_004341.5",
"protein_id": "NP_004332.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 2225,
"cds_start": -4,
"cds_end": null,
"cds_length": 6678,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7286,
"mane_select": "ENST00000264705.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_acceptor_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "c.1843-1G>A",
"hgvs_p": null,
"transcript": "ENST00000264705.9",
"protein_id": "ENSP00000264705.3",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 2225,
"cds_start": -4,
"cds_end": null,
"cds_length": 6678,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7286,
"mane_select": "NM_004341.5",
"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": 43,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "c.1842+204G>A",
"hgvs_p": null,
"transcript": "ENST00000403525.5",
"protein_id": "ENSP00000384510.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 2162,
"cds_start": -4,
"cds_end": null,
"cds_length": 6489,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6900,
"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": 43,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "c.1842+204G>A",
"hgvs_p": null,
"transcript": "NM_001306079.2",
"protein_id": "NP_001293008.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 2162,
"cds_start": -4,
"cds_end": null,
"cds_length": 6489,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7097,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_acceptor_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "c.1843-1G>A",
"hgvs_p": null,
"transcript": "XM_047445803.1",
"protein_id": "XP_047301759.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 2242,
"cds_start": -4,
"cds_end": null,
"cds_length": 6729,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7337,
"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": 44,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "c.1842+204G>A",
"hgvs_p": null,
"transcript": "XM_006712101.4",
"protein_id": "XP_006712164.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 2179,
"cds_start": -4,
"cds_end": null,
"cds_length": 6540,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7148,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"hgvs_c": "n.-94G>A",
"hgvs_p": null,
"transcript": "ENST00000491891.1",
"protein_id": null,
"transcript_support_level": 3,
"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": 662,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "CAD",
"gene_hgnc_id": 1424,
"dbsnp": "rs769567624",
"frequency_reference_population": 0.0000013683953,
"hom_count_reference_population": 0,
"allele_count_reference_population": 2,
"gnomad_exomes_af": 0.0000013684,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 2,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.41999998688697815,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.9259999990463257,
"splice_prediction_selected": "Pathogenic",
"splice_source_selected": "dbscSNV1_RF",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.42,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 8.682,
"phylop100way_prediction": "Pathogenic",
"spliceai_max_score": 0.99,
"spliceai_max_prediction": "Pathogenic",
"dbscsnv_ada_score": 0.999986675681007,
"dbscsnv_ada_prediction": "Pathogenic",
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": 6,
"acmg_classification": "Likely_pathogenic",
"acmg_criteria": "PVS1_Moderate,PM2,PP5_Moderate",
"acmg_by_gene": [
{
"score": 6,
"benign_score": 0,
"pathogenic_score": 6,
"criteria": [
"PVS1_Moderate",
"PM2",
"PP5_Moderate"
],
"verdict": "Likely_pathogenic",
"transcript": "ENST00000264705.9",
"gene_symbol": "CAD",
"hgnc_id": 1424,
"effects": [
"splice_acceptor_variant",
"intron_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1843-1G>A",
"hgvs_p": null
}
],
"clinvar_disease": " 50,Developmental and epileptic encephalopathy,not provided",
"clinvar_classification": "Pathogenic",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "P:1",
"phenotype_combined": "Developmental and epileptic encephalopathy, 50|not provided",
"pathogenicity_classification_combined": "Pathogenic",
"custom_annotations": null
}
],
"message": null
}