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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: 8-143609533-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=8&pos=143609533&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "8",
"pos": 143609533,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000495276.6",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "c.16C>T",
"hgvs_p": "p.Pro6Ser",
"transcript": "NM_023078.6",
"protein_id": "NP_075566.3",
"transcript_support_level": null,
"aa_start": 6,
"aa_end": null,
"aa_length": 274,
"cds_start": 16,
"cds_end": null,
"cds_length": 825,
"cdna_start": 43,
"cdna_end": null,
"cdna_length": 3342,
"mane_select": "ENST00000495276.6",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "c.16C>T",
"hgvs_p": "p.Pro6Ser",
"transcript": "ENST00000495276.6",
"protein_id": "ENSP00000480945.1",
"transcript_support_level": 1,
"aa_start": 6,
"aa_end": null,
"aa_length": 274,
"cds_start": 16,
"cds_end": null,
"cds_length": 825,
"cdna_start": 43,
"cdna_end": null,
"cdna_length": 3342,
"mane_select": "NM_023078.6",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "c.52C>T",
"hgvs_p": "p.Pro18Ser",
"transcript": "ENST00000220966.10",
"protein_id": "ENSP00000220966.6",
"transcript_support_level": 1,
"aa_start": 18,
"aa_end": null,
"aa_length": 286,
"cds_start": 52,
"cds_end": null,
"cds_length": 861,
"cdna_start": 82,
"cdna_end": null,
"cdna_length": 2678,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "c.16C>T",
"hgvs_p": "p.Pro6Ser",
"transcript": "NM_001329866.3",
"protein_id": "NP_001316795.2",
"transcript_support_level": null,
"aa_start": 6,
"aa_end": null,
"aa_length": 254,
"cds_start": 16,
"cds_end": null,
"cds_length": 765,
"cdna_start": 43,
"cdna_end": null,
"cdna_length": 3282,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "c.16C>T",
"hgvs_p": "p.Pro6Ser",
"transcript": "ENST00000433751.5",
"protein_id": "ENSP00000404493.2",
"transcript_support_level": 2,
"aa_start": 6,
"aa_end": null,
"aa_length": 254,
"cds_start": 16,
"cds_end": null,
"cds_length": 765,
"cdna_start": 37,
"cdna_end": null,
"cdna_length": 1000,
"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": 1,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "n.16C>T",
"hgvs_p": null,
"transcript": "ENST00000447926.6",
"protein_id": "ENSP00000401804.2",
"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": 1324,
"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": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "n.25C>T",
"hgvs_p": null,
"transcript": "ENST00000482616.1",
"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": 830,
"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": 1,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "n.43C>T",
"hgvs_p": null,
"transcript": "NR_138144.3",
"protein_id": null,
"transcript_support_level": null,
"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": 3455,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 6,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"hgvs_c": "c.-321+143C>T",
"hgvs_p": null,
"transcript": "ENST00000377579.7",
"protein_id": "ENSP00000366802.3",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 137,
"cds_start": -4,
"cds_end": null,
"cds_length": 414,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 985,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "PYCR3",
"gene_hgnc_id": 25846,
"dbsnp": "rs193920765",
"frequency_reference_population": 0.000002943085,
"hom_count_reference_population": 0,
"allele_count_reference_population": 4,
"gnomad_exomes_af": 0.00000294309,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 4,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.03342953324317932,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.034,
"revel_prediction": "Benign",
"alphamissense_score": 0.0787,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.56,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -1.795,
"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": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000495276.6",
"gene_symbol": "PYCR3",
"hgnc_id": 25846,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.16C>T",
"hgvs_p": "p.Pro6Ser"
}
],
"clinvar_disease": "Prostate cancer",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "no assertion criteria provided",
"clinvar_submissions_summary": "null",
"phenotype_combined": "Prostate cancer",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}