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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: 20-48636949-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=20&pos=48636949&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "20",
"pos": 48636949,
"ref": "T",
"alt": "C",
"effect": "intron_variant",
"transcript": "ENST00000371941.4",
"consequences": [
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": 31,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.3947-266A>G",
"hgvs_p": null,
"transcript": "NM_020820.4",
"protein_id": "NP_065871.3",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1659,
"cds_start": -4,
"cds_end": null,
"cds_length": 4980,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6752,
"mane_select": "ENST00000371941.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": 31,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.3947-266A>G",
"hgvs_p": null,
"transcript": "ENST00000371941.4",
"protein_id": "ENSP00000361009.3",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 1659,
"cds_start": -4,
"cds_end": null,
"cds_length": 4980,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6752,
"mane_select": "NM_020820.4",
"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": 22,
"intron_rank": 14,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "n.1910-266A>G",
"hgvs_p": null,
"transcript": "ENST00000482556.5",
"protein_id": "ENSP00000434632.1",
"transcript_support_level": 2,
"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": 4682,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": 32,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.3422-266A>G",
"hgvs_p": null,
"transcript": "XM_047440331.1",
"protein_id": "XP_047296287.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1484,
"cds_start": -4,
"cds_end": null,
"cds_length": 4455,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6889,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": 31,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.3422-266A>G",
"hgvs_p": null,
"transcript": "XM_047440332.1",
"protein_id": "XP_047296288.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1484,
"cds_start": -4,
"cds_end": null,
"cds_length": 4455,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6633,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": 32,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.3422-266A>G",
"hgvs_p": null,
"transcript": "XM_047440333.1",
"protein_id": "XP_047296289.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1484,
"cds_start": -4,
"cds_end": null,
"cds_length": 4455,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6599,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 32,
"intron_rank": 23,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.2747-266A>G",
"hgvs_p": null,
"transcript": "XM_011528934.2",
"protein_id": "XP_011527236.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1259,
"cds_start": -4,
"cds_end": null,
"cds_length": 3780,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5538,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": 17,
"intron_rank_end": null,
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"hgvs_c": "c.2084-266A>G",
"hgvs_p": null,
"transcript": "XM_047440334.1",
"protein_id": "XP_047296290.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1038,
"cds_start": -4,
"cds_end": null,
"cds_length": 3117,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4881,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "PREX1",
"gene_hgnc_id": 32594,
"dbsnp": "rs3935549",
"frequency_reference_population": 0.6084279,
"hom_count_reference_population": 31010,
"allele_count_reference_population": 92565,
"gnomad_exomes_af": null,
"gnomad_genomes_af": 0.608428,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": 92565,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": 31010,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.9100000262260437,
"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": -0.91,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -1.96,
"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": -12,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BA1",
"acmg_by_gene": [
{
"score": -12,
"benign_score": 12,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000371941.4",
"gene_symbol": "PREX1",
"hgnc_id": 32594,
"effects": [
"intron_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.3947-266A>G",
"hgvs_p": null
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}