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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: 16-88654764-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=88654764&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "16",
"pos": 88654764,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_002461.3",
"consequences": [
{
"aa_ref": "T",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "c.941C>T",
"hgvs_p": "p.Thr314Ile",
"transcript": "NM_002461.3",
"protein_id": "NP_002452.1",
"transcript_support_level": null,
"aa_start": 314,
"aa_end": null,
"aa_length": 400,
"cds_start": 941,
"cds_end": null,
"cds_length": 1203,
"cdna_start": 952,
"cdna_end": null,
"cdna_length": 1799,
"mane_select": "ENST00000301012.8",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "T",
"aa_alt": "I",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "c.941C>T",
"hgvs_p": "p.Thr314Ile",
"transcript": "ENST00000301012.8",
"protein_id": "ENSP00000301012.3",
"transcript_support_level": 1,
"aa_start": 314,
"aa_end": null,
"aa_length": 400,
"cds_start": 941,
"cds_end": null,
"cds_length": 1203,
"cdna_start": 952,
"cdna_end": null,
"cdna_length": 1799,
"mane_select": "NM_002461.3",
"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": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "n.1500C>T",
"hgvs_p": null,
"transcript": "ENST00000565149.5",
"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": 2352,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "T",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "c.1043C>T",
"hgvs_p": "p.Thr348Ile",
"transcript": "XM_011523086.3",
"protein_id": "XP_011521388.1",
"transcript_support_level": null,
"aa_start": 348,
"aa_end": null,
"aa_length": 434,
"cds_start": 1043,
"cds_end": null,
"cds_length": 1305,
"cdna_start": 1054,
"cdna_end": null,
"cdna_length": 1901,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "T",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "c.980C>T",
"hgvs_p": "p.Thr327Ile",
"transcript": "XM_011523087.3",
"protein_id": "XP_011521389.1",
"transcript_support_level": null,
"aa_start": 327,
"aa_end": null,
"aa_length": 413,
"cds_start": 980,
"cds_end": null,
"cds_length": 1242,
"cdna_start": 1124,
"cdna_end": null,
"cdna_length": 1971,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "T",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "c.878C>T",
"hgvs_p": "p.Thr293Ile",
"transcript": "XM_011523088.3",
"protein_id": "XP_011521390.1",
"transcript_support_level": null,
"aa_start": 293,
"aa_end": null,
"aa_length": 379,
"cds_start": 878,
"cds_end": null,
"cds_length": 1140,
"cdna_start": 1022,
"cdna_end": null,
"cdna_length": 1869,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "T",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "c.590C>T",
"hgvs_p": "p.Thr197Ile",
"transcript": "XM_011523089.3",
"protein_id": "XP_011521391.1",
"transcript_support_level": null,
"aa_start": 197,
"aa_end": null,
"aa_length": 283,
"cds_start": 590,
"cds_end": null,
"cds_length": 852,
"cdna_start": 1242,
"cdna_end": null,
"cdna_length": 2089,
"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": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"hgvs_c": "n.222C>T",
"hgvs_p": null,
"transcript": "ENST00000561895.1",
"protein_id": null,
"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": 499,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "MVD",
"gene_hgnc_id": 7529,
"dbsnp": "rs1907799816",
"frequency_reference_population": 0.0000027644662,
"hom_count_reference_population": 0,
"allele_count_reference_population": 4,
"gnomad_exomes_af": 0.00000276447,
"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": 0.48858416080474854,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.166,
"revel_prediction": "Benign",
"alphamissense_score": 0.2151,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.36,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 3.715,
"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": 2,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2",
"acmg_by_gene": [
{
"score": 2,
"benign_score": 0,
"pathogenic_score": 2,
"criteria": [
"PM2"
],
"verdict": "Uncertain_significance",
"transcript": "NM_002461.3",
"gene_symbol": "MVD",
"hgnc_id": 7529,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.941C>T",
"hgvs_p": "p.Thr314Ile"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}