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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: 17-81941183-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=81941183&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "17",
"pos": 81941183,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_001145113.3",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "C",
"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": "MYADML2",
"gene_hgnc_id": 34548,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Arg187Cys",
"transcript": "NM_001145113.3",
"protein_id": "NP_001138585.2",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 307,
"cds_start": 559,
"cds_end": null,
"cds_length": 924,
"cdna_start": 914,
"cdna_end": null,
"cdna_length": 2452,
"mane_select": "ENST00000409745.2",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001145113.3"
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": true,
"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": "MYADML2",
"gene_hgnc_id": 34548,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Arg187Cys",
"transcript": "ENST00000409745.2",
"protein_id": "ENSP00000386702.2",
"transcript_support_level": 1,
"aa_start": 187,
"aa_end": null,
"aa_length": 307,
"cds_start": 559,
"cds_end": null,
"cds_length": 924,
"cdna_start": 914,
"cdna_end": null,
"cdna_length": 2452,
"mane_select": "NM_001145113.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000409745.2"
},
{
"aa_ref": "R",
"aa_alt": "C",
"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": "MYADML2",
"gene_hgnc_id": 34548,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Arg187Cys",
"transcript": "ENST00000858967.1",
"protein_id": "ENSP00000529026.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 307,
"cds_start": 559,
"cds_end": null,
"cds_length": 924,
"cdna_start": 893,
"cdna_end": null,
"cdna_length": 2429,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000858967.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "PYCR1",
"gene_hgnc_id": 9721,
"hgvs_c": "c.-24+1113C>T",
"hgvs_p": null,
"transcript": "ENST00000582198.5",
"protein_id": "ENSP00000463226.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 241,
"cds_start": null,
"cds_end": null,
"cds_length": 728,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 868,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000582198.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR1",
"gene_hgnc_id": 9721,
"hgvs_c": "c.-457C>T",
"hgvs_p": null,
"transcript": "ENST00000579366.5",
"protein_id": "ENSP00000462398.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": 108,
"cds_start": null,
"cds_end": null,
"cds_length": 328,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 681,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000579366.5"
}
],
"gene_symbol": "MYADML2",
"gene_hgnc_id": 34548,
"dbsnp": "rs201860567",
"frequency_reference_population": 0.00007289476,
"hom_count_reference_population": 0,
"allele_count_reference_population": 113,
"gnomad_exomes_af": 0.0000472151,
"gnomad_genomes_af": 0.000308557,
"gnomad_exomes_ac": 66,
"gnomad_genomes_ac": 47,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.014272451400756836,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.095,
"revel_prediction": "Benign",
"alphamissense_score": 0.21,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.47,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 2.021,
"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": -4,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4_Strong",
"acmg_by_gene": [
{
"score": -4,
"benign_score": 4,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "NM_001145113.3",
"gene_symbol": "MYADML2",
"hgnc_id": 34548,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Arg187Cys"
},
{
"score": -8,
"benign_score": 8,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BS1"
],
"verdict": "Benign",
"transcript": "ENST00000582198.5",
"gene_symbol": "PYCR1",
"hgnc_id": 9721,
"effects": [
"intron_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.-24+1113C>T",
"hgvs_p": null
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}