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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: 9-113374140-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=9&pos=113374140&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "9",
"pos": 113374140,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_031219.4",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "NM_001304509.2",
"protein_id": "NP_001291438.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000374180.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001304509.2"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000374180.4",
"protein_id": "ENSP00000363295.3",
"transcript_support_level": 1,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_001304509.2",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000374180.4"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000238379.9",
"protein_id": "ENSP00000238379.5",
"transcript_support_level": 1,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000238379.9"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "NM_001304510.2",
"protein_id": "NP_001291439.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001304510.2"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "NM_001304511.2",
"protein_id": "NP_001291440.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001304511.2"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "NM_001371923.1",
"protein_id": "NP_001358852.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001371923.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "NM_031219.4",
"protein_id": "NP_112496.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_031219.4"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900262.1",
"protein_id": "ENSP00000570321.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900262.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900263.1",
"protein_id": "ENSP00000570322.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900263.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900264.1",
"protein_id": "ENSP00000570323.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900264.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900265.1",
"protein_id": "ENSP00000570324.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900265.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900266.1",
"protein_id": "ENSP00000570325.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900266.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900267.1",
"protein_id": "ENSP00000570326.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900267.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900268.1",
"protein_id": "ENSP00000570327.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900268.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900269.1",
"protein_id": "ENSP00000570328.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900269.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900270.1",
"protein_id": "ENSP00000570329.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900270.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000900271.1",
"protein_id": "ENSP00000570330.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000900271.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000928135.1",
"protein_id": "ENSP00000598194.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000928135.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000968238.1",
"protein_id": "ENSP00000638297.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000968238.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His",
"transcript": "ENST00000968239.1",
"protein_id": "ENSP00000638298.1",
"transcript_support_level": null,
"aa_start": 72,
"aa_end": null,
"aa_length": 251,
"cds_start": 215,
"cds_end": null,
"cds_length": 756,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000968239.1"
},
{
"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": "HDHD3",
"gene_hgnc_id": 28171,
"hgvs_c": "n.661G>A",
"hgvs_p": null,
"transcript": "ENST00000485934.1",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000485934.1"
}
],
"gene_symbol": "HDHD3",
"gene_hgnc_id": 28171,
"dbsnp": "rs769615094",
"frequency_reference_population": 0.000014394108,
"hom_count_reference_population": 0,
"allele_count_reference_population": 23,
"gnomad_exomes_af": 0.0000145263,
"gnomad_genomes_af": 0.0000131384,
"gnomad_exomes_ac": 21,
"gnomad_genomes_ac": 2,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.12108638882637024,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.089,
"revel_prediction": "Benign",
"alphamissense_score": 0.1096,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.59,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.054,
"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": 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_031219.4",
"gene_symbol": "HDHD3",
"hgnc_id": 28171,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.215G>A",
"hgvs_p": "p.Arg72His"
}
],
"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
}