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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: 22-50312579-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=22&pos=50312579&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "22",
"pos": 50312579,
"ref": "G",
"alt": "T",
"effect": "missense_variant",
"transcript": "ENST00000413817.8",
"consequences": [
{
"aa_ref": "H",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 18,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"hgvs_c": "c.1504C>A",
"hgvs_p": "p.His502Asn",
"transcript": "NM_001001794.4",
"protein_id": "NP_001001794.3",
"transcript_support_level": null,
"aa_start": 502,
"aa_end": null,
"aa_length": 585,
"cds_start": 1504,
"cds_end": null,
"cds_length": 1758,
"cdna_start": 1528,
"cdna_end": null,
"cdna_length": 4891,
"mane_select": "ENST00000413817.8",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "H",
"aa_alt": "N",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 18,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"hgvs_c": "c.1504C>A",
"hgvs_p": "p.His502Asn",
"transcript": "ENST00000413817.8",
"protein_id": "ENSP00000391524.2",
"transcript_support_level": 1,
"aa_start": 502,
"aa_end": null,
"aa_length": 585,
"cds_start": 1504,
"cds_end": null,
"cds_length": 1758,
"cdna_start": 1528,
"cdna_end": null,
"cdna_length": 4891,
"mane_select": "NM_001001794.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "H",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 19,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"hgvs_c": "c.1666C>A",
"hgvs_p": "p.His556Asn",
"transcript": "XM_011530692.4",
"protein_id": "XP_011528994.1",
"transcript_support_level": null,
"aa_start": 556,
"aa_end": null,
"aa_length": 639,
"cds_start": 1666,
"cds_end": null,
"cds_length": 1920,
"cdna_start": 1690,
"cdna_end": null,
"cdna_length": 5053,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "H",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 19,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"hgvs_c": "c.1651C>A",
"hgvs_p": "p.His551Asn",
"transcript": "XM_005261914.5",
"protein_id": "XP_005261971.1",
"transcript_support_level": null,
"aa_start": 551,
"aa_end": null,
"aa_length": 634,
"cds_start": 1651,
"cds_end": null,
"cds_length": 1905,
"cdna_start": 1675,
"cdna_end": null,
"cdna_length": 5038,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "H",
"aa_alt": "N",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 18,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"hgvs_c": "c.1519C>A",
"hgvs_p": "p.His507Asn",
"transcript": "XM_011530693.4",
"protein_id": "XP_011528995.1",
"transcript_support_level": null,
"aa_start": 507,
"aa_end": null,
"aa_length": 590,
"cds_start": 1519,
"cds_end": null,
"cds_length": 1773,
"cdna_start": 1543,
"cdna_end": null,
"cdna_length": 4906,
"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": 15,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"hgvs_c": "n.2023C>A",
"hgvs_p": null,
"transcript": "ENST00000495607.5",
"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": 2450,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "DENND6B",
"gene_hgnc_id": 32690,
"dbsnp": "rs1024580623",
"frequency_reference_population": 0.000002084451,
"hom_count_reference_population": 0,
"allele_count_reference_population": 3,
"gnomad_exomes_af": 0.00000208445,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 3,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.6591987609863281,
"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": 0.084,
"revel_prediction": "Benign",
"alphamissense_score": 0.1897,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.37,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.681,
"phylop100way_prediction": "Uncertain_significance",
"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": 2,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2",
"acmg_by_gene": [
{
"score": 2,
"benign_score": 0,
"pathogenic_score": 2,
"criteria": [
"PM2"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000413817.8",
"gene_symbol": "DENND6B",
"hgnc_id": 32690,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1504C>A",
"hgvs_p": "p.His502Asn"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}