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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: 16-4575663-C-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=4575663&ref=C&alt=G&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 4,
"criteria": [
"PM2",
"BP4_Strong"
],
"effects": [
"missense_variant"
],
"gene_symbol": "C16orf96",
"hgnc_id": 40031,
"hgvs_c": "c.1183C>G",
"hgvs_p": "p.Leu395Val",
"inheritance_mode": "AR",
"pathogenic_score": 2,
"score": -2,
"transcript": "NM_001145011.2",
"verdict": "Likely_benign"
}
],
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_score": -2,
"allele_count_reference_population": 7,
"alphamissense_prediction": "Benign",
"alphamissense_score": 0.117,
"alt": "G",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.66,
"chr": "16",
"clinvar_classification": "",
"clinvar_disease": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"computational_prediction_selected": "Benign",
"computational_score_selected": 0.046796560287475586,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "V",
"aa_end": null,
"aa_length": 1141,
"aa_ref": "L",
"aa_start": 395,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4017,
"cdna_start": 1333,
"cds_end": null,
"cds_length": 3426,
"cds_start": 1183,
"consequences": [
"missense_variant"
],
"exon_count": 16,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "NM_001145011.2",
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"hgvs_c": "c.1183C>G",
"hgvs_p": "p.Leu395Val",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000444310.5",
"protein_coding": true,
"protein_id": "NP_001138483.1",
"strand": true,
"transcript": "NM_001145011.2",
"transcript_support_level": null
},
{
"aa_alt": "V",
"aa_end": null,
"aa_length": 1141,
"aa_ref": "L",
"aa_start": 395,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 4017,
"cdna_start": 1333,
"cds_end": null,
"cds_length": 3426,
"cds_start": 1183,
"consequences": [
"missense_variant"
],
"exon_count": 16,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "ENST00000444310.5",
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"hgvs_c": "c.1183C>G",
"hgvs_p": "p.Leu395Val",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_001145011.2",
"protein_coding": true,
"protein_id": "ENSP00000415027.3",
"strand": true,
"transcript": "ENST00000444310.5",
"transcript_support_level": 5
},
{
"aa_alt": "V",
"aa_end": null,
"aa_length": 1141,
"aa_ref": "L",
"aa_start": 395,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4734,
"cdna_start": 2050,
"cds_end": null,
"cds_length": 3426,
"cds_start": 1183,
"consequences": [
"missense_variant"
],
"exon_count": 18,
"exon_rank": 7,
"exon_rank_end": null,
"feature": "NM_001387219.1",
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"hgvs_c": "c.1183C>G",
"hgvs_p": "p.Leu395Val",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001374148.1",
"strand": true,
"transcript": "NM_001387219.1",
"transcript_support_level": null
},
{
"aa_alt": "V",
"aa_end": null,
"aa_length": 1121,
"aa_ref": "L",
"aa_start": 395,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3957,
"cdna_start": 1333,
"cds_end": null,
"cds_length": 3366,
"cds_start": 1183,
"consequences": [
"missense_variant"
],
"exon_count": 17,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "XM_005255298.4",
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"hgvs_c": "c.1183C>G",
"hgvs_p": "p.Leu395Val",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_005255355.1",
"strand": true,
"transcript": "XM_005255298.4",
"transcript_support_level": null
},
{
"aa_alt": "V",
"aa_end": null,
"aa_length": 1086,
"aa_ref": "L",
"aa_start": 395,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3852,
"cdna_start": 1333,
"cds_end": null,
"cds_length": 3261,
"cds_start": 1183,
"consequences": [
"missense_variant"
],
"exon_count": 15,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "XM_005255301.4",
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"hgvs_c": "c.1183C>G",
"hgvs_p": "p.Leu395Val",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_005255358.1",
"strand": true,
"transcript": "XM_005255301.4",
"transcript_support_level": null
},
{
"aa_alt": "V",
"aa_end": null,
"aa_length": 1000,
"aa_ref": "L",
"aa_start": 254,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3931,
"cdna_start": 1247,
"cds_end": null,
"cds_length": 3003,
"cds_start": 760,
"consequences": [
"missense_variant"
],
"exon_count": 16,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "XM_047434053.1",
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"hgvs_c": "c.760C>G",
"hgvs_p": "p.Leu254Val",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047290009.1",
"strand": true,
"transcript": "XM_047434053.1",
"transcript_support_level": null
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs577103751",
"effect": "missense_variant",
"frequency_reference_population": 0.0000050593244,
"gene_hgnc_id": 40031,
"gene_symbol": "C16orf96",
"gnomad_exomes_ac": 7,
"gnomad_exomes_af": 0.00000505932,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_ac": null,
"gnomad_genomes_af": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": null,
"phenotype_combined": null,
"phylop100way_prediction": "Benign",
"phylop100way_score": -1.554,
"pos": 4575663,
"ref": "C",
"revel_prediction": "Benign",
"revel_score": 0.007,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_001145011.2"
}
]
}