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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: 2-238170637-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=238170637&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 238170637,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "ENST00000254654.8",
"consequences": [
{
"aa_ref": "D",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.1078G>A",
"hgvs_p": "p.Asp360Asn",
"transcript": "NM_030768.3",
"protein_id": "NP_110395.1",
"transcript_support_level": null,
"aa_start": 360,
"aa_end": null,
"aa_length": 392,
"cds_start": 1078,
"cds_end": null,
"cds_length": 1179,
"cdna_start": 1220,
"cdna_end": null,
"cdna_length": 1455,
"mane_select": "ENST00000254654.8",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "D",
"aa_alt": "N",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.1078G>A",
"hgvs_p": "p.Asp360Asn",
"transcript": "ENST00000254654.8",
"protein_id": "ENSP00000254654.3",
"transcript_support_level": 1,
"aa_start": 360,
"aa_end": null,
"aa_length": 392,
"cds_start": 1078,
"cds_end": null,
"cds_length": 1179,
"cdna_start": 1220,
"cdna_end": null,
"cdna_length": 1455,
"mane_select": "NM_030768.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "D",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.724G>A",
"hgvs_p": "p.Asp242Asn",
"transcript": "ENST00000622223.4",
"protein_id": "ENSP00000477542.1",
"transcript_support_level": 1,
"aa_start": 242,
"aa_end": null,
"aa_length": 274,
"cds_start": 724,
"cds_end": null,
"cds_length": 825,
"cdna_start": 854,
"cdna_end": null,
"cdna_length": 1088,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.*482G>A",
"hgvs_p": null,
"transcript": "ENST00000612675.4",
"protein_id": "ENSP00000477533.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 162,
"cds_start": -4,
"cds_end": null,
"cds_length": 489,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1335,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "D",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.874G>A",
"hgvs_p": "p.Asp292Asn",
"transcript": "XM_006712784.2",
"protein_id": "XP_006712847.1",
"transcript_support_level": null,
"aa_start": 292,
"aa_end": null,
"aa_length": 324,
"cds_start": 874,
"cds_end": null,
"cds_length": 975,
"cdna_start": 1002,
"cdna_end": null,
"cdna_length": 1237,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "D",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.718G>A",
"hgvs_p": "p.Asp240Asn",
"transcript": "XM_017005057.2",
"protein_id": "XP_016860546.1",
"transcript_support_level": null,
"aa_start": 240,
"aa_end": null,
"aa_length": 272,
"cds_start": 718,
"cds_end": null,
"cds_length": 819,
"cdna_start": 870,
"cdna_end": null,
"cdna_length": 1105,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "D",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.682G>A",
"hgvs_p": "p.Asp228Asn",
"transcript": "XM_017005058.2",
"protein_id": "XP_016860547.1",
"transcript_support_level": null,
"aa_start": 228,
"aa_end": null,
"aa_length": 260,
"cds_start": 682,
"cds_end": null,
"cds_length": 783,
"cdna_start": 763,
"cdna_end": null,
"cdna_length": 998,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "n.1626G>A",
"hgvs_p": null,
"transcript": "ENST00000463129.5",
"protein_id": null,
"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": 1861,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "n.515G>A",
"hgvs_p": null,
"transcript": "ENST00000465131.5",
"protein_id": null,
"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": 750,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "n.2423G>A",
"hgvs_p": null,
"transcript": "ENST00000466468.5",
"protein_id": null,
"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": 2651,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"hgvs_c": "c.*183G>A",
"hgvs_p": null,
"transcript": "ENST00000450411.1",
"protein_id": "ENSP00000406254.1",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 203,
"cds_start": -4,
"cds_end": null,
"cds_length": 612,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1024,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "ILKAP",
"gene_hgnc_id": 15566,
"dbsnp": "rs760658545",
"frequency_reference_population": 0.0000048317916,
"hom_count_reference_population": 0,
"allele_count_reference_population": 7,
"gnomad_exomes_af": 0.00000483179,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 7,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.3177177309989929,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.112,
"revel_prediction": "Benign",
"alphamissense_score": 0.1372,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.55,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 7.249,
"phylop100way_prediction": "Uncertain_significance",
"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": -5,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4,BS2",
"acmg_by_gene": [
{
"score": -5,
"benign_score": 5,
"pathogenic_score": 0,
"criteria": [
"BP4",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "ENST00000254654.8",
"gene_symbol": "ILKAP",
"hgnc_id": 15566,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.1078G>A",
"hgvs_p": "p.Asp360Asn"
}
],
"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
}