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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: 16-574474-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=574474&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "16",
"pos": 574474,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "ENST00000321878.10",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "NM_004204.5",
"protein_id": "NP_004195.2",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 581,
"cds_start": 400,
"cds_end": null,
"cds_length": 1746,
"cdna_start": 538,
"cdna_end": null,
"cdna_length": 2958,
"mane_select": "ENST00000321878.10",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "ENST00000321878.10",
"protein_id": "ENSP00000326674.6",
"transcript_support_level": 1,
"aa_start": 134,
"aa_end": null,
"aa_length": 581,
"cds_start": 400,
"cds_end": null,
"cds_length": 1746,
"cdna_start": 538,
"cdna_end": null,
"cdna_length": 2958,
"mane_select": "NM_004204.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "ENST00000026218.9",
"protein_id": "ENSP00000026218.5",
"transcript_support_level": 1,
"aa_start": 134,
"aa_end": null,
"aa_length": 760,
"cds_start": 400,
"cds_end": null,
"cds_length": 2283,
"cdna_start": 488,
"cdna_end": null,
"cdna_length": 2846,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "ENST00000470411.2",
"protein_id": "ENSP00000439650.1",
"transcript_support_level": 1,
"aa_start": 134,
"aa_end": null,
"aa_length": 299,
"cds_start": 400,
"cds_end": null,
"cds_length": 900,
"cdna_start": 444,
"cdna_end": null,
"cdna_length": 2112,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "NM_148920.4",
"protein_id": "NP_683721.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 760,
"cds_start": 400,
"cds_end": null,
"cds_length": 2283,
"cdna_start": 538,
"cdna_end": null,
"cdna_length": 2896,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "ENST00000409527.6",
"protein_id": "ENSP00000386760.2",
"transcript_support_level": 2,
"aa_start": 134,
"aa_end": null,
"aa_length": 581,
"cds_start": 400,
"cds_end": null,
"cds_length": 1746,
"cdna_start": 569,
"cdna_end": null,
"cdna_length": 1915,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "ENST00000422307.6",
"protein_id": "ENSP00000413753.2",
"transcript_support_level": 3,
"aa_start": 134,
"aa_end": null,
"aa_length": 396,
"cds_start": 400,
"cds_end": null,
"cds_length": 1191,
"cdna_start": 530,
"cdna_end": null,
"cdna_length": 2052,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys",
"transcript": "ENST00000293874.2",
"protein_id": "ENSP00000293874.2",
"transcript_support_level": 4,
"aa_start": 134,
"aa_end": null,
"aa_length": 147,
"cds_start": 400,
"cds_end": null,
"cds_length": 445,
"cdna_start": 558,
"cdna_end": null,
"cdna_length": 603,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000282907",
"gene_hgnc_id": null,
"hgvs_c": "n.562C>T",
"hgvs_p": null,
"transcript": "ENST00000409439.6",
"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": 916,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "n.442C>T",
"hgvs_p": null,
"transcript": "ENST00000443147.5",
"protein_id": "ENSP00000410434.1",
"transcript_support_level": 2,
"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": 2054,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000282907",
"gene_hgnc_id": null,
"hgvs_c": "n.744C>T",
"hgvs_p": null,
"transcript": "ENST00000635107.1",
"protein_id": null,
"transcript_support_level": 5,
"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": 1289,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 1,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "n.106+36C>T",
"hgvs_p": null,
"transcript": "ENST00000635909.1",
"protein_id": "ENSP00000490267.1",
"transcript_support_level": 5,
"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": 2212,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 12,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "n.364+36C>T",
"hgvs_p": null,
"transcript": "ENST00000636657.1",
"protein_id": "ENSP00000490087.1",
"transcript_support_level": 5,
"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": 2841,
"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": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "n.-234C>T",
"hgvs_p": null,
"transcript": "ENST00000636005.1",
"protein_id": "ENSP00000490498.1",
"transcript_support_level": 5,
"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": 1355,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"hgvs_c": "c.*65C>T",
"hgvs_p": null,
"transcript": "ENST00000439574.1",
"protein_id": "ENSP00000387820.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": 110,
"cds_start": -4,
"cds_end": null,
"cds_length": 335,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 586,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "PIGQ",
"gene_hgnc_id": 14135,
"dbsnp": "rs199780849",
"frequency_reference_population": 0.0003428052,
"hom_count_reference_population": 0,
"allele_count_reference_population": 552,
"gnomad_exomes_af": 0.000360073,
"gnomad_genomes_af": 0.000177391,
"gnomad_exomes_ac": 525,
"gnomad_genomes_ac": 27,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.6258206367492676,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.019999999552965164,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.321,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.2788,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.05,
"bayesdelnoaf_prediction": "Uncertain_significance",
"phylop100way_score": 3.632,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.02,
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 0,
"pathogenic_score": 0,
"criteria": [],
"verdict": "Uncertain_significance",
"transcript": "ENST00000321878.10",
"gene_symbol": "PIGQ",
"hgnc_id": 14135,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR,AD",
"hgvs_c": "c.400C>T",
"hgvs_p": "p.Arg134Cys"
},
{
"score": 0,
"benign_score": 0,
"pathogenic_score": 0,
"criteria": [],
"verdict": "Uncertain_significance",
"transcript": "ENST00000409439.6",
"gene_symbol": "ENSG00000282907",
"hgnc_id": null,
"effects": [
"non_coding_transcript_exon_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.562C>T",
"hgvs_p": null
}
],
"clinvar_disease": "Epilepsy,not provided",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "US:2",
"phenotype_combined": "Epilepsy|not provided",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}