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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: X-37453364-C-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=37453364&ref=C&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 37453364,
"ref": "C",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000378628.9",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "NM_001142395.2",
"protein_id": "NP_001135867.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 218,
"cds_start": 400,
"cds_end": null,
"cds_length": 657,
"cdna_start": 473,
"cdna_end": null,
"cdna_length": 4400,
"mane_select": "ENST00000378628.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "ENST00000378628.9",
"protein_id": "ENSP00000367894.4",
"transcript_support_level": 1,
"aa_start": 134,
"aa_end": null,
"aa_length": 218,
"cds_start": 400,
"cds_end": null,
"cds_length": 657,
"cdna_start": 473,
"cdna_end": null,
"cdna_length": 4400,
"mane_select": "NM_001142395.2",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "ENST00000449135.6",
"protein_id": "ENSP00000390332.2",
"transcript_support_level": 1,
"aa_start": 134,
"aa_end": null,
"aa_length": 218,
"cds_start": 400,
"cds_end": null,
"cds_length": 657,
"cdna_start": 556,
"cdna_end": null,
"cdna_length": 4481,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "n.478C>A",
"hgvs_p": null,
"transcript": "ENST00000470290.1",
"protein_id": null,
"transcript_support_level": 1,
"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": 760,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "ENSG00000250349",
"gene_hgnc_id": null,
"hgvs_c": "c.171+27364C>A",
"hgvs_p": null,
"transcript": "ENST00000465127.1",
"protein_id": "ENSP00000417050.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 279,
"cds_start": -4,
"cds_end": null,
"cds_length": 840,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 954,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "NM_000950.3",
"protein_id": "NP_000941.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 218,
"cds_start": 400,
"cds_end": null,
"cds_length": 657,
"cdna_start": 564,
"cdna_end": null,
"cdna_length": 4491,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "NM_001173489.2",
"protein_id": "NP_001166960.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 218,
"cds_start": 400,
"cds_end": null,
"cds_length": 657,
"cdna_start": 638,
"cdna_end": null,
"cdna_length": 4565,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "NM_001173490.2",
"protein_id": "NP_001166961.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 218,
"cds_start": 400,
"cds_end": null,
"cds_length": 657,
"cdna_start": 547,
"cdna_end": null,
"cdna_length": 4474,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr",
"transcript": "ENST00000466533.5",
"protein_id": "ENSP00000418384.1",
"transcript_support_level": 3,
"aa_start": 134,
"aa_end": null,
"aa_length": 148,
"cds_start": 400,
"cds_end": null,
"cds_length": 447,
"cdna_start": 581,
"cdna_end": null,
"cdna_length": 628,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"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": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "n.367C>A",
"hgvs_p": null,
"transcript": "ENST00000491253.1",
"protein_id": null,
"transcript_support_level": 3,
"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": 650,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.171+27364C>A",
"hgvs_p": null,
"transcript": "ENST00000850644.1",
"protein_id": "ENSP00000520923.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 59,
"cds_start": -4,
"cds_end": null,
"cds_length": 180,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1234,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "n.172-8234C>A",
"hgvs_p": null,
"transcript": "ENST00000850645.1",
"protein_id": "ENSP00000520924.1",
"transcript_support_level": null,
"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": 1315,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"hgvs_c": "c.*56C>A",
"hgvs_p": null,
"transcript": "ENST00000484460.5",
"protein_id": "ENSP00000420353.1",
"transcript_support_level": 4,
"aa_start": null,
"aa_end": null,
"aa_length": 113,
"cds_start": -4,
"cds_end": null,
"cds_length": 344,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 582,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "PRRG1",
"gene_hgnc_id": 9469,
"dbsnp": "rs145751381",
"frequency_reference_population": 0.0000036446668,
"hom_count_reference_population": 2,
"allele_count_reference_population": 4,
"gnomad_exomes_af": 0.00000364467,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 4,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.2250237762928009,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.424,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.0713,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.09,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.323,
"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": -6,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4_Moderate,BS2",
"acmg_by_gene": [
{
"score": -6,
"benign_score": 6,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "ENST00000378628.9",
"gene_symbol": "PRRG1",
"hgnc_id": 9469,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.400C>A",
"hgvs_p": "p.Pro134Thr"
},
{
"score": -6,
"benign_score": 6,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "ENST00000465127.1",
"gene_symbol": "ENSG00000250349",
"hgnc_id": null,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.171+27364C>A",
"hgvs_p": null
}
],
"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
}