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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: 1-6249469-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=6249469&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "1",
"pos": 6249469,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_207370.4",
"consequences": [
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1699G>A",
"hgvs_p": "p.Ala567Thr",
"transcript": "NM_207370.4",
"protein_id": "NP_997253.2",
"transcript_support_level": null,
"aa_start": 567,
"aa_end": null,
"aa_length": 609,
"cds_start": 1699,
"cds_end": null,
"cds_length": 1830,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000377893.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_207370.4"
},
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1699G>A",
"hgvs_p": "p.Ala567Thr",
"transcript": "ENST00000377893.3",
"protein_id": "ENSP00000367125.2",
"transcript_support_level": 1,
"aa_start": 567,
"aa_end": null,
"aa_length": 609,
"cds_start": 1699,
"cds_end": null,
"cds_length": 1830,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_207370.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000377893.3"
},
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1726G>A",
"hgvs_p": "p.Ala576Thr",
"transcript": "ENST00000937750.1",
"protein_id": "ENSP00000607809.1",
"transcript_support_level": null,
"aa_start": 576,
"aa_end": null,
"aa_length": 618,
"cds_start": 1726,
"cds_end": null,
"cds_length": 1857,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000937750.1"
},
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1699G>A",
"hgvs_p": "p.Ala567Thr",
"transcript": "ENST00000937749.1",
"protein_id": "ENSP00000607808.1",
"transcript_support_level": null,
"aa_start": 567,
"aa_end": null,
"aa_length": 609,
"cds_start": 1699,
"cds_end": null,
"cds_length": 1830,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000937749.1"
},
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1519G>A",
"hgvs_p": "p.Ala507Thr",
"transcript": "ENST00000957092.1",
"protein_id": "ENSP00000627151.1",
"transcript_support_level": null,
"aa_start": 507,
"aa_end": null,
"aa_length": 549,
"cds_start": 1519,
"cds_end": null,
"cds_length": 1650,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000957092.1"
},
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1699G>A",
"hgvs_p": "p.Ala567Thr",
"transcript": "XM_011541434.4",
"protein_id": "XP_011539736.1",
"transcript_support_level": null,
"aa_start": 567,
"aa_end": null,
"aa_length": 609,
"cds_start": 1699,
"cds_end": null,
"cds_length": 1830,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011541434.4"
},
{
"aa_ref": "A",
"aa_alt": "T",
"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": "GPR153",
"gene_hgnc_id": 23618,
"hgvs_c": "c.1699G>A",
"hgvs_p": "p.Ala567Thr",
"transcript": "XM_017001250.2",
"protein_id": "XP_016856739.1",
"transcript_support_level": null,
"aa_start": 567,
"aa_end": null,
"aa_length": 609,
"cds_start": 1699,
"cds_end": null,
"cds_length": 1830,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017001250.2"
}
],
"gene_symbol": "GPR153",
"gene_hgnc_id": 23618,
"dbsnp": "rs568629267",
"frequency_reference_population": 0.000031767788,
"hom_count_reference_population": 0,
"allele_count_reference_population": 42,
"gnomad_exomes_af": 0.0000247804,
"gnomad_genomes_af": 0.0000856311,
"gnomad_exomes_ac": 29,
"gnomad_genomes_ac": 13,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.019772112369537354,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.03,
"revel_prediction": "Benign",
"alphamissense_score": 0.0828,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.61,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.804,
"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": -4,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4_Strong",
"acmg_by_gene": [
{
"score": -4,
"benign_score": 4,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "NM_207370.4",
"gene_symbol": "GPR153",
"hgnc_id": 23618,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1699G>A",
"hgvs_p": "p.Ala567Thr"
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}