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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: 1-92480922-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=92480922&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "1",
"pos": 92480922,
"ref": "G",
"alt": "A",
"effect": "synonymous_variant",
"transcript": "ENST00000294702.6",
"consequences": [
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "NM_005263.5",
"protein_id": "NP_005254.2",
"transcript_support_level": null,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 764,
"cdna_end": null,
"cdna_length": 4554,
"mane_select": "ENST00000294702.6",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "ENST00000294702.6",
"protein_id": "ENSP00000294702.5",
"transcript_support_level": 2,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 764,
"cdna_end": null,
"cdna_length": 4554,
"mane_select": "NM_005263.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "ENST00000370332.5",
"protein_id": "ENSP00000359357.1",
"transcript_support_level": 1,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 784,
"cdna_end": null,
"cdna_length": 2855,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "ENST00000427103.6",
"protein_id": "ENSP00000399719.1",
"transcript_support_level": 1,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 648,
"cdna_end": null,
"cdna_length": 2719,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "NM_001127215.3",
"protein_id": "NP_001120687.1",
"transcript_support_level": null,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 644,
"cdna_end": null,
"cdna_length": 4434,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "NM_001127216.3",
"protein_id": "NP_001120688.1",
"transcript_support_level": null,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 650,
"cdna_end": null,
"cdna_length": 4440,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "XM_005270749.4",
"protein_id": "XP_005270806.1",
"transcript_support_level": null,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 2218,
"cdna_end": null,
"cdna_length": 6008,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "XM_011541245.3",
"protein_id": "XP_011539547.1",
"transcript_support_level": null,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 2000,
"cdna_end": null,
"cdna_length": 5790,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "C",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys",
"transcript": "XM_011541246.3",
"protein_id": "XP_011539548.1",
"transcript_support_level": null,
"aa_start": 155,
"aa_end": null,
"aa_length": 422,
"cds_start": 465,
"cds_end": null,
"cds_length": 1269,
"cdna_start": 993,
"cdna_end": null,
"cdna_length": 4783,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "GFI1",
"gene_hgnc_id": 4237,
"dbsnp": "rs11164605",
"frequency_reference_population": 0.8209953,
"hom_count_reference_population": 527705,
"allele_count_reference_population": 1279173,
"gnomad_exomes_af": 0.817775,
"gnomad_genomes_af": 0.850796,
"gnomad_exomes_ac": 1149886,
"gnomad_genomes_ac": 129287,
"gnomad_exomes_homalt": 472346,
"gnomad_genomes_homalt": 55359,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.5799999833106995,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.58,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.199,
"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": -21,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BP7,BA1",
"acmg_by_gene": [
{
"score": -21,
"benign_score": 21,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BP7",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000294702.6",
"gene_symbol": "GFI1",
"hgnc_id": 4237,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.465C>T",
"hgvs_p": "p.Cys155Cys"
}
],
"clinvar_disease": " 2, autosomal dominant, severe congenital,Neutropenia,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:7 O:1",
"phenotype_combined": "not specified|not provided|Neutropenia, severe congenital, 2, autosomal dominant",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}