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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: 17-75830089-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=75830089&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 9,
"criteria": [
"BP4_Strong",
"BP6",
"BS1"
],
"effects": [
"missense_variant"
],
"gene_symbol": "UNC13D",
"hgnc_id": 23147,
"hgvs_c": "c.2893G>A",
"hgvs_p": "p.Ala965Thr",
"inheritance_mode": "AR",
"pathogenic_score": 0,
"score": -9,
"transcript": "NM_199242.3",
"verdict": "Benign"
}
],
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6,BS1",
"acmg_score": -9,
"allele_count_reference_population": 1636,
"alphamissense_prediction": null,
"alphamissense_score": 0.0877,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.55,
"chr": "17",
"clinvar_classification": "Conflicting classifications of pathogenicity",
"clinvar_disease": "Familial hemophagocytic lymphohistiocytosis 3,Intellectual disability",
"clinvar_review_status": "criteria provided, conflicting classifications",
"clinvar_submissions_summary": "US:3 LB:1",
"computational_prediction_selected": "Benign",
"computational_score_selected": 0.017514973878860474,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1090,
"aa_ref": "A",
"aa_start": 965,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4080,
"cdna_start": 2960,
"cds_end": null,
"cds_length": 3273,
"cds_start": 2893,
"consequences": [
"missense_variant"
],
"exon_count": 32,
"exon_rank": 30,
"exon_rank_end": null,
"feature": "NM_199242.3",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2893G>A",
"hgvs_p": "p.Ala965Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000207549.9",
"protein_coding": true,
"protein_id": "NP_954712.1",
"strand": false,
"transcript": "NM_199242.3",
"transcript_support_level": null
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1090,
"aa_ref": "A",
"aa_start": 965,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 4080,
"cdna_start": 2960,
"cds_end": null,
"cds_length": 3273,
"cds_start": 2893,
"consequences": [
"missense_variant"
],
"exon_count": 32,
"exon_rank": 30,
"exon_rank_end": null,
"feature": "ENST00000207549.9",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2893G>A",
"hgvs_p": "p.Ala965Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_199242.3",
"protein_coding": true,
"protein_id": "ENSP00000207549.3",
"strand": false,
"transcript": "ENST00000207549.9",
"transcript_support_level": 1
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1142,
"aa_ref": "A",
"aa_start": 965,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3648,
"cdna_start": 2906,
"cds_end": null,
"cds_length": 3429,
"cds_start": 2893,
"consequences": [
"missense_variant"
],
"exon_count": 33,
"exon_rank": 30,
"exon_rank_end": null,
"feature": "ENST00000412096.6",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2893G>A",
"hgvs_p": "p.Ala965Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000388093.1",
"strand": false,
"transcript": "ENST00000412096.6",
"transcript_support_level": 2
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1090,
"aa_ref": "A",
"aa_start": 965,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4084,
"cdna_start": 2964,
"cds_end": null,
"cds_length": 3273,
"cds_start": 2893,
"consequences": [
"missense_variant"
],
"exon_count": 33,
"exon_rank": 31,
"exon_rank_end": null,
"feature": "ENST00000868100.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2893G>A",
"hgvs_p": "p.Ala965Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000538159.1",
"strand": false,
"transcript": "ENST00000868100.1",
"transcript_support_level": null
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1090,
"aa_ref": "A",
"aa_start": 965,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4078,
"cdna_start": 2976,
"cds_end": null,
"cds_length": 3273,
"cds_start": 2893,
"consequences": [
"missense_variant"
],
"exon_count": 33,
"exon_rank": 31,
"exon_rank_end": null,
"feature": "ENST00000868101.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2893G>A",
"hgvs_p": "p.Ala965Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000538160.1",
"strand": false,
"transcript": "ENST00000868101.1",
"transcript_support_level": null
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1073,
"aa_ref": "A",
"aa_start": 948,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4057,
"cdna_start": 2937,
"cds_end": null,
"cds_length": 3222,
"cds_start": 2842,
"consequences": [
"missense_variant"
],
"exon_count": 33,
"exon_rank": 31,
"exon_rank_end": null,
"feature": "ENST00000965711.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2842G>A",
"hgvs_p": "p.Ala948Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000635770.1",
"strand": false,
"transcript": "ENST00000965711.1",
"transcript_support_level": null
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 1059,
"aa_ref": "A",
"aa_start": 934,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4301,
"cdna_start": 3181,
"cds_end": null,
"cds_length": 3180,
"cds_start": 2800,
"consequences": [
"missense_variant"
],
"exon_count": 31,
"exon_rank": 29,
"exon_rank_end": null,
"feature": "ENST00000965712.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.2800G>A",
"hgvs_p": "p.Ala934Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000635771.1",
"strand": false,
"transcript": "ENST00000965712.1",
"transcript_support_level": null
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 712,
"aa_ref": "A",
"aa_start": 587,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 2740,
"cdna_start": 1759,
"cds_end": null,
"cds_length": 2139,
"cds_start": 1759,
"consequences": [
"missense_variant"
],
"exon_count": 20,
"exon_rank": 18,
"exon_rank_end": null,
"feature": "ENST00000699510.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.1759G>A",
"hgvs_p": "p.Ala587Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000514405.1",
"strand": false,
"transcript": "ENST00000699510.1",
"transcript_support_level": null
},
{
"aa_alt": "T",
"aa_end": null,
"aa_length": 145,
"aa_ref": "A",
"aa_start": 20,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 668,
"cdna_start": 59,
"cds_end": null,
"cds_length": 438,
"cds_start": 58,
"consequences": [
"missense_variant"
],
"exon_count": 4,
"exon_rank": 1,
"exon_rank_end": null,
"feature": "ENST00000589670.5",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "c.58G>A",
"hgvs_p": "p.Ala20Thr",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000466758.1",
"strand": false,
"transcript": "ENST00000589670.5",
"transcript_support_level": 3
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 695,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 3,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000590856.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "n.268G>A",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000590856.1",
"transcript_support_level": 3
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "nonsense_mediated_decay",
"canonical": false,
"cdna_end": null,
"cdna_length": 403,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 3,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000586519.1",
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"hgvs_c": "n.76+273G>A",
"hgvs_p": null,
"intron_rank": 1,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": "ENSP00000466149.1",
"strand": false,
"transcript": "ENST00000586519.1",
"transcript_support_level": 5
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs144744401",
"effect": "missense_variant",
"frequency_reference_population": 0.0010349269,
"gene_hgnc_id": 23147,
"gene_symbol": "UNC13D",
"gnomad_exomes_ac": 1549,
"gnomad_exomes_af": 0.00108435,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_ac": 87,
"gnomad_genomes_af": 0.000571301,
"gnomad_genomes_homalt": 0,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
"phenotype_combined": "Familial hemophagocytic lymphohistiocytosis 3|Intellectual disability",
"phylop100way_prediction": "Benign",
"phylop100way_score": 1.938,
"pos": 75830089,
"ref": "C",
"revel_prediction": "Benign",
"revel_score": 0.086,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_199242.3"
}
]
}