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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: 21-41899234-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=21&pos=41899234&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 15,
"criteria": [
"BP4_Strong",
"BP6_Moderate",
"BP7",
"BS1",
"BS2"
],
"effects": [
"synonymous_variant"
],
"gene_symbol": "C2CD2",
"hgnc_id": 1266,
"hgvs_c": "c.1689C>T",
"hgvs_p": "p.Ala563Ala",
"inheritance_mode": "AR",
"pathogenic_score": 0,
"score": -15,
"transcript": "NM_015500.2",
"verdict": "Benign"
}
],
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Moderate,BP7,BS1,BS2",
"acmg_score": -15,
"allele_count_reference_population": 2203,
"alphamissense_prediction": null,
"alphamissense_score": null,
"alt": "A",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.85,
"chr": "21",
"clinvar_classification": "Benign",
"clinvar_disease": "not provided",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "B:1",
"computational_prediction_selected": "Benign",
"computational_score_selected": -0.8500000238418579,
"computational_source_selected": "BayesDel_noAF",
"consequences": [
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 696,
"aa_ref": "A",
"aa_start": 563,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6473,
"cdna_start": 2059,
"cds_end": null,
"cds_length": 2091,
"cds_start": 1689,
"consequences": [
"synonymous_variant"
],
"exon_count": 14,
"exon_rank": 13,
"exon_rank_end": null,
"feature": "NM_015500.2",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1689C>T",
"hgvs_p": "p.Ala563Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000380486.4",
"protein_coding": true,
"protein_id": "NP_056315.1",
"strand": false,
"transcript": "NM_015500.2",
"transcript_support_level": null
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 696,
"aa_ref": "A",
"aa_start": 563,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 6473,
"cdna_start": 2059,
"cds_end": null,
"cds_length": 2091,
"cds_start": 1689,
"consequences": [
"synonymous_variant"
],
"exon_count": 14,
"exon_rank": 13,
"exon_rank_end": null,
"feature": "ENST00000380486.4",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1689C>T",
"hgvs_p": "p.Ala563Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_015500.2",
"protein_coding": true,
"protein_id": "ENSP00000369853.3",
"strand": false,
"transcript": "ENST00000380486.4",
"transcript_support_level": 1
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 541,
"aa_ref": "A",
"aa_start": 408,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5844,
"cdna_start": 1430,
"cds_end": null,
"cds_length": 1626,
"cds_start": 1224,
"consequences": [
"synonymous_variant"
],
"exon_count": 13,
"exon_rank": 12,
"exon_rank_end": null,
"feature": "ENST00000329623.11",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1224C>T",
"hgvs_p": "p.Ala408Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000329302.7",
"strand": false,
"transcript": "ENST00000329623.11",
"transcript_support_level": 1
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 181,
"aa_ref": "A",
"aa_start": 48,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4559,
"cdna_start": 145,
"cds_end": null,
"cds_length": 546,
"cds_start": 144,
"consequences": [
"synonymous_variant"
],
"exon_count": 3,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000449165.5",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.144C>T",
"hgvs_p": "p.Ala48Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000388704.1",
"strand": false,
"transcript": "ENST00000449165.5",
"transcript_support_level": 1
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 4542,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 6,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "ENST00000482186.5",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "n.1689C>T",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000482186.5",
"transcript_support_level": 1
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 661,
"aa_ref": "A",
"aa_start": 528,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6333,
"cdna_start": 1921,
"cds_end": null,
"cds_length": 1986,
"cds_start": 1584,
"consequences": [
"synonymous_variant"
],
"exon_count": 13,
"exon_rank": 12,
"exon_rank_end": null,
"feature": "ENST00000890791.1",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1584C>T",
"hgvs_p": "p.Ala528Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000560850.1",
"strand": false,
"transcript": "ENST00000890791.1",
"transcript_support_level": null
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 541,
"aa_ref": "A",
"aa_start": 408,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5857,
"cdna_start": 1443,
"cds_end": null,
"cds_length": 1626,
"cds_start": 1224,
"consequences": [
"synonymous_variant"
],
"exon_count": 13,
"exon_rank": 12,
"exon_rank_end": null,
"feature": "NM_199050.3",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1224C>T",
"hgvs_p": "p.Ala408Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_950251.1",
"strand": false,
"transcript": "NM_199050.3",
"transcript_support_level": null
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 707,
"aa_ref": "A",
"aa_start": 574,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6506,
"cdna_start": 2092,
"cds_end": null,
"cds_length": 2124,
"cds_start": 1722,
"consequences": [
"synonymous_variant"
],
"exon_count": 14,
"exon_rank": 13,
"exon_rank_end": null,
"feature": "XM_011529522.3",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1722C>T",
"hgvs_p": "p.Ala574Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011527824.1",
"strand": false,
"transcript": "XM_011529522.3",
"transcript_support_level": null
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 616,
"aa_ref": "A",
"aa_start": 483,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6960,
"cdna_start": 2546,
"cds_end": null,
"cds_length": 1851,
"cds_start": 1449,
"consequences": [
"synonymous_variant"
],
"exon_count": 14,
"exon_rank": 13,
"exon_rank_end": null,
"feature": "XM_011529523.3",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1449C>T",
"hgvs_p": "p.Ala483Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011527825.1",
"strand": false,
"transcript": "XM_011529523.3",
"transcript_support_level": null
},
{
"aa_alt": "A",
"aa_end": null,
"aa_length": 541,
"aa_ref": "A",
"aa_start": 408,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5859,
"cdna_start": 1445,
"cds_end": null,
"cds_length": 1626,
"cds_start": 1224,
"consequences": [
"synonymous_variant"
],
"exon_count": 13,
"exon_rank": 12,
"exon_rank_end": null,
"feature": "XM_005261109.5",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "c.1224C>T",
"hgvs_p": "p.Ala408Ala",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_005261166.1",
"strand": false,
"transcript": "XM_005261109.5",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 4123,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 11,
"exon_rank": 10,
"exon_rank_end": null,
"feature": "ENST00000482084.5",
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"hgvs_c": "n.1270C>T",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000482084.5",
"transcript_support_level": 2
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs116743178",
"effect": "synonymous_variant",
"frequency_reference_population": 0.0013663744,
"gene_hgnc_id": 1266,
"gene_symbol": "C2CD2",
"gnomad_exomes_ac": 1171,
"gnomad_exomes_af": 0.000801987,
"gnomad_exomes_homalt": 10,
"gnomad_genomes_ac": 1032,
"gnomad_genomes_af": 0.0067818,
"gnomad_genomes_homalt": 18,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 28,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": "Benign",
"phenotype_combined": "not provided",
"phylop100way_prediction": "Benign",
"phylop100way_score": -1.586,
"pos": 41899234,
"ref": "G",
"revel_prediction": null,
"revel_score": null,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_015500.2"
}
]
}