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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: 9-39078834-C-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=9&pos=39078834&ref=C&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "9",
"pos": 39078834,
"ref": "C",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_033655.5",
"consequences": [
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"hgvs_c": "c.3529G>C",
"hgvs_p": "p.Ala1177Pro",
"transcript": "NM_033655.5",
"protein_id": "NP_387504.2",
"transcript_support_level": null,
"aa_start": 1177,
"aa_end": null,
"aa_length": 1288,
"cds_start": 3529,
"cds_end": null,
"cds_length": 3867,
"cdna_start": 3632,
"cdna_end": null,
"cdna_length": 13150,
"mane_select": "ENST00000297668.11",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"hgvs_c": "c.3529G>C",
"hgvs_p": "p.Ala1177Pro",
"transcript": "ENST00000297668.11",
"protein_id": "ENSP00000297668.6",
"transcript_support_level": 1,
"aa_start": 1177,
"aa_end": null,
"aa_length": 1288,
"cds_start": 3529,
"cds_end": null,
"cds_length": 3867,
"cdna_start": 3632,
"cdna_end": null,
"cdna_length": 13150,
"mane_select": "NM_033655.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"hgvs_c": "c.3286G>C",
"hgvs_p": "p.Ala1096Pro",
"transcript": "ENST00000377656.6",
"protein_id": "ENSP00000366884.2",
"transcript_support_level": 1,
"aa_start": 1096,
"aa_end": null,
"aa_length": 1207,
"cds_start": 3286,
"cds_end": null,
"cds_length": 3624,
"cdna_start": 3525,
"cdna_end": null,
"cdna_length": 4986,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"hgvs_c": "c.3286G>C",
"hgvs_p": "p.Ala1096Pro",
"transcript": "NM_001393379.1",
"protein_id": "NP_001380308.1",
"transcript_support_level": null,
"aa_start": 1096,
"aa_end": null,
"aa_length": 1207,
"cds_start": 3286,
"cds_end": null,
"cds_length": 3624,
"cdna_start": 3389,
"cdna_end": null,
"cdna_length": 12907,
"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": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"hgvs_c": "n.275G>C",
"hgvs_p": null,
"transcript": "ENST00000477002.1",
"protein_id": null,
"transcript_support_level": 5,
"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": 291,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"hgvs_c": "n.274-378G>C",
"hgvs_p": null,
"transcript": "ENST00000493965.5",
"protein_id": null,
"transcript_support_level": 5,
"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": 765,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "CNTNAP3",
"gene_hgnc_id": 13834,
"dbsnp": "rs1410147674",
"frequency_reference_population": 0.0000065677996,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 0.00000289666,
"gnomad_genomes_af": 0.0000065678,
"gnomad_exomes_ac": 4,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.3766688108444214,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.019999999552965164,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.485,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.4041,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.11,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.603,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.02,
"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": 1,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4",
"acmg_by_gene": [
{
"score": 1,
"benign_score": 1,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4"
],
"verdict": "Uncertain_significance",
"transcript": "NM_033655.5",
"gene_symbol": "CNTNAP3",
"hgnc_id": 13834,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.3529G>C",
"hgvs_p": "p.Ala1177Pro"
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}