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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: 8-85477174-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=8&pos=85477174&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "8",
"pos": 85477174,
"ref": "T",
"alt": "C",
"effect": "synonymous_variant",
"transcript": "NM_000067.3",
"consequences": [
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "c.562T>C",
"hgvs_p": "p.Leu188Leu",
"transcript": "NM_000067.3",
"protein_id": "NP_000058.1",
"transcript_support_level": null,
"aa_start": 188,
"aa_end": null,
"aa_length": 260,
"cds_start": 562,
"cds_end": null,
"cds_length": 783,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000285379.10",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000067.3"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "c.562T>C",
"hgvs_p": "p.Leu188Leu",
"transcript": "ENST00000285379.10",
"protein_id": "ENSP00000285379.4",
"transcript_support_level": 1,
"aa_start": 188,
"aa_end": null,
"aa_length": 260,
"cds_start": 562,
"cds_end": null,
"cds_length": 783,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_000067.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000285379.10"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "c.556T>C",
"hgvs_p": "p.Leu186Leu",
"transcript": "ENST00000960030.1",
"protein_id": "ENSP00000630089.1",
"transcript_support_level": null,
"aa_start": 186,
"aa_end": null,
"aa_length": 258,
"cds_start": 556,
"cds_end": null,
"cds_length": 777,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000960030.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "c.259T>C",
"hgvs_p": "p.Leu87Leu",
"transcript": "NM_001293675.2",
"protein_id": "NP_001280604.1",
"transcript_support_level": null,
"aa_start": 87,
"aa_end": null,
"aa_length": 159,
"cds_start": 259,
"cds_end": null,
"cds_length": 480,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001293675.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "n.*149T>C",
"hgvs_p": null,
"transcript": "ENST00000520127.5",
"protein_id": "ENSP00000428443.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000520127.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "n.*149T>C",
"hgvs_p": null,
"transcript": "ENST00000520127.5",
"protein_id": "ENSP00000428443.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000520127.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"hgvs_c": "n.*336T>C",
"hgvs_p": null,
"transcript": "ENST00000522742.1",
"protein_id": "ENSP00000428947.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000522742.1"
}
],
"gene_symbol": "CA2",
"gene_hgnc_id": 1373,
"dbsnp": "rs703",
"frequency_reference_population": 0.5994407,
"hom_count_reference_population": 293212,
"allele_count_reference_population": 967194,
"gnomad_exomes_af": 0.596105,
"gnomad_genomes_af": 0.631548,
"gnomad_exomes_ac": 871282,
"gnomad_genomes_ac": 95912,
"gnomad_exomes_homalt": 262450,
"gnomad_genomes_homalt": 30762,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.8500000238418579,
"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": -0.85,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.062,
"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": "NM_000067.3",
"gene_symbol": "CA2",
"hgnc_id": 1373,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.562T>C",
"hgvs_p": "p.Leu188Leu"
}
],
"clinvar_disease": "Osteopetrosis with renal tubular acidosis,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:6",
"phenotype_combined": "not specified|Osteopetrosis with renal tubular acidosis|not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}