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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: 19-4816615-T-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=4816615&ref=T&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "19",
"pos": 4816615,
"ref": "T",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_182919.4",
"consequences": [
{
"aa_ref": "Q",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"hgvs_c": "c.1763A>C",
"hgvs_p": "p.Gln588Pro",
"transcript": "NM_182919.4",
"protein_id": "NP_891549.1",
"transcript_support_level": null,
"aa_start": 588,
"aa_end": null,
"aa_length": 712,
"cds_start": 1763,
"cds_end": null,
"cds_length": 2139,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000248244.6",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_182919.4"
},
{
"aa_ref": "Q",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"hgvs_c": "c.1763A>C",
"hgvs_p": "p.Gln588Pro",
"transcript": "ENST00000248244.6",
"protein_id": "ENSP00000248244.4",
"transcript_support_level": 1,
"aa_start": 588,
"aa_end": null,
"aa_length": 712,
"cds_start": 1763,
"cds_end": null,
"cds_length": 2139,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_182919.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000248244.6"
},
{
"aa_ref": "Q",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"hgvs_c": "c.1763A>C",
"hgvs_p": "p.Gln588Pro",
"transcript": "ENST00000868535.1",
"protein_id": "ENSP00000538594.1",
"transcript_support_level": null,
"aa_start": 588,
"aa_end": null,
"aa_length": 712,
"cds_start": 1763,
"cds_end": null,
"cds_length": 2139,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000868535.1"
},
{
"aa_ref": "Q",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"hgvs_c": "c.1721A>C",
"hgvs_p": "p.Gln574Pro",
"transcript": "NM_001385678.1",
"protein_id": "NP_001372607.1",
"transcript_support_level": null,
"aa_start": 574,
"aa_end": null,
"aa_length": 698,
"cds_start": 1721,
"cds_end": null,
"cds_length": 2097,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001385678.1"
},
{
"aa_ref": "Q",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"hgvs_c": "c.1628A>C",
"hgvs_p": "p.Gln543Pro",
"transcript": "NM_001385679.1",
"protein_id": "NP_001372608.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 667,
"cds_start": 1628,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001385679.1"
},
{
"aa_ref": "Q",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"hgvs_c": "c.1121A>C",
"hgvs_p": "p.Gln374Pro",
"transcript": "NM_001385680.1",
"protein_id": "NP_001372609.1",
"transcript_support_level": null,
"aa_start": 374,
"aa_end": null,
"aa_length": 498,
"cds_start": 1121,
"cds_end": null,
"cds_length": 1497,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001385680.1"
}
],
"gene_symbol": "TICAM1",
"gene_hgnc_id": 18348,
"dbsnp": "rs199784356",
"frequency_reference_population": 0.00018339643,
"hom_count_reference_population": 2,
"allele_count_reference_population": 296,
"gnomad_exomes_af": 0.000176509,
"gnomad_genomes_af": 0.000249488,
"gnomad_exomes_ac": 258,
"gnomad_genomes_ac": 38,
"gnomad_exomes_homalt": 2,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.0038536787033081055,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.034,
"revel_prediction": "Benign",
"alphamissense_score": 0.1986,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.54,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.307,
"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": -10,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Moderate,BS2",
"acmg_by_gene": [
{
"score": -10,
"benign_score": 10,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Moderate",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_182919.4",
"gene_symbol": "TICAM1",
"hgnc_id": 18348,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR,AD,SD",
"hgvs_c": "c.1763A>C",
"hgvs_p": "p.Gln588Pro"
}
],
"clinvar_disease": " 4, susceptibility to,Herpes simplex encephalitis",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "B:1",
"phenotype_combined": "Herpes simplex encephalitis, susceptibility to, 4",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}