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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: 5-149609649-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=5&pos=149609649&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "5",
"pos": 149609649,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_001001669.3",
"consequences": [
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.412G>A",
"hgvs_p": "p.Glu138Lys",
"transcript": "NM_001001669.3",
"protein_id": "NP_001001669.2",
"transcript_support_level": null,
"aa_start": 138,
"aa_end": null,
"aa_length": 675,
"cds_start": 412,
"cds_end": null,
"cds_length": 2028,
"cdna_start": 550,
"cdna_end": null,
"cdna_length": 4943,
"mane_select": "ENST00000333677.7",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.412G>A",
"hgvs_p": "p.Glu138Lys",
"transcript": "ENST00000333677.7",
"protein_id": "ENSP00000328083.6",
"transcript_support_level": 2,
"aa_start": 138,
"aa_end": null,
"aa_length": 675,
"cds_start": 412,
"cds_end": null,
"cds_length": 2028,
"cdna_start": 550,
"cdna_end": null,
"cdna_length": 4943,
"mane_select": "NM_001001669.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.445G>A",
"hgvs_p": "p.Glu149Lys",
"transcript": "XM_011537642.4",
"protein_id": "XP_011535944.1",
"transcript_support_level": null,
"aa_start": 149,
"aa_end": null,
"aa_length": 686,
"cds_start": 445,
"cds_end": null,
"cds_length": 2061,
"cdna_start": 922,
"cdna_end": null,
"cdna_length": 5315,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.412G>A",
"hgvs_p": "p.Glu138Lys",
"transcript": "XM_005268447.4",
"protein_id": "XP_005268504.1",
"transcript_support_level": null,
"aa_start": 138,
"aa_end": null,
"aa_length": 675,
"cds_start": 412,
"cds_end": null,
"cds_length": 2028,
"cdna_start": 447,
"cdna_end": null,
"cdna_length": 4840,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.412G>A",
"hgvs_p": "p.Glu138Lys",
"transcript": "XM_006714784.4",
"protein_id": "XP_006714847.1",
"transcript_support_level": null,
"aa_start": 138,
"aa_end": null,
"aa_length": 675,
"cds_start": 412,
"cds_end": null,
"cds_length": 2028,
"cdna_start": 667,
"cdna_end": null,
"cdna_length": 5060,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.445G>A",
"hgvs_p": "p.Glu149Lys",
"transcript": "XM_047417170.1",
"protein_id": "XP_047273126.1",
"transcript_support_level": null,
"aa_start": 149,
"aa_end": null,
"aa_length": 649,
"cds_start": 445,
"cds_end": null,
"cds_length": 1950,
"cdna_start": 922,
"cdna_end": null,
"cdna_length": 5204,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.412G>A",
"hgvs_p": "p.Glu138Lys",
"transcript": "XM_017009460.2",
"protein_id": "XP_016864949.1",
"transcript_support_level": null,
"aa_start": 138,
"aa_end": null,
"aa_length": 638,
"cds_start": 412,
"cds_end": null,
"cds_length": 1917,
"cdna_start": 550,
"cdna_end": null,
"cdna_length": 4832,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"hgvs_c": "c.-231G>A",
"hgvs_p": null,
"transcript": "XM_005268448.2",
"protein_id": "XP_005268505.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 461,
"cds_start": -4,
"cds_end": null,
"cds_length": 1386,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4746,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "ARHGEF37",
"gene_hgnc_id": 34430,
"dbsnp": null,
"frequency_reference_population": 6.846811e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84681e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.10916933417320251,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.055,
"revel_prediction": "Benign",
"alphamissense_score": 0.1062,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.58,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.61,
"phylop100way_prediction": "Uncertain_significance",
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001001669.3",
"gene_symbol": "ARHGEF37",
"hgnc_id": 34430,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.412G>A",
"hgvs_p": "p.Glu138Lys"
}
],
"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
}