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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: 16-81096226-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=81096226&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "16",
"pos": 81096226,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000315467.9",
"consequences": [
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "NM_004483.5",
"protein_id": "NP_004474.2",
"transcript_support_level": null,
"aa_start": 18,
"aa_end": null,
"aa_length": 173,
"cds_start": 53,
"cds_end": null,
"cds_length": 522,
"cdna_start": 170,
"cdna_end": null,
"cdna_length": 1560,
"mane_select": "ENST00000315467.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "ENST00000315467.9",
"protein_id": "ENSP00000319531.3",
"transcript_support_level": 1,
"aa_start": 18,
"aa_end": null,
"aa_length": 173,
"cds_start": 53,
"cds_end": null,
"cds_length": 522,
"cdna_start": 170,
"cdna_end": null,
"cdna_length": 1560,
"mane_select": "NM_004483.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000284512",
"gene_hgnc_id": null,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "ENST00000640345.1",
"protein_id": "ENSP00000492798.1",
"transcript_support_level": 5,
"aa_start": 18,
"aa_end": null,
"aa_length": 197,
"cds_start": 53,
"cds_end": null,
"cds_length": 594,
"cdna_start": 59,
"cdna_end": null,
"cdna_length": 2892,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000260643",
"gene_hgnc_id": null,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "ENST00000564536.2",
"protein_id": "ENSP00000491651.1",
"transcript_support_level": 5,
"aa_start": 18,
"aa_end": null,
"aa_length": 181,
"cds_start": 53,
"cds_end": null,
"cds_length": 546,
"cdna_start": 71,
"cdna_end": null,
"cdna_length": 1032,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "ENST00000639169.1",
"protein_id": "ENSP00000491127.1",
"transcript_support_level": 2,
"aa_start": 18,
"aa_end": null,
"aa_length": 162,
"cds_start": 53,
"cds_end": null,
"cds_length": 489,
"cdna_start": 111,
"cdna_end": null,
"cdna_length": 2537,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000260643",
"gene_hgnc_id": null,
"hgvs_c": "c.8C>T",
"hgvs_p": "p.Ala3Val",
"transcript": "ENST00000638948.1",
"protein_id": "ENSP00000491484.1",
"transcript_support_level": 5,
"aa_start": 3,
"aa_end": null,
"aa_length": 151,
"cds_start": 8,
"cds_end": null,
"cds_length": 456,
"cdna_start": 8,
"cdna_end": null,
"cdna_length": 887,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.32C>T",
"hgvs_p": "p.Ala11Val",
"transcript": "ENST00000561801.2",
"protein_id": "ENSP00000457645.2",
"transcript_support_level": 3,
"aa_start": 11,
"aa_end": null,
"aa_length": 118,
"cds_start": 32,
"cds_end": null,
"cds_length": 357,
"cdna_start": 32,
"cdna_end": null,
"cdna_length": 403,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000284512",
"gene_hgnc_id": null,
"hgvs_c": "c.35C>T",
"hgvs_p": "p.Ala12Val",
"transcript": "ENST00000638192.1",
"protein_id": "ENSP00000492056.1",
"transcript_support_level": 5,
"aa_start": 12,
"aa_end": null,
"aa_length": 99,
"cds_start": 35,
"cds_end": null,
"cds_length": 300,
"cdna_start": 36,
"cdna_end": null,
"cdna_length": 610,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.14C>T",
"hgvs_p": "p.Ala5Val",
"transcript": "ENST00000569885.6",
"protein_id": "ENSP00000455579.1",
"transcript_support_level": 3,
"aa_start": 5,
"aa_end": null,
"aa_length": 65,
"cds_start": 14,
"cds_end": null,
"cds_length": 198,
"cdna_start": 15,
"cdna_end": null,
"cdna_length": 647,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "ENST00000639689.1",
"protein_id": "ENSP00000492187.1",
"transcript_support_level": 5,
"aa_start": 18,
"aa_end": null,
"aa_length": 58,
"cds_start": 53,
"cds_end": null,
"cds_length": 177,
"cdna_start": 63,
"cdna_end": null,
"cdna_length": 2412,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val",
"transcript": "XM_017023136.3",
"protein_id": "XP_016878625.1",
"transcript_support_level": null,
"aa_start": 18,
"aa_end": null,
"aa_length": 179,
"cds_start": 53,
"cds_end": null,
"cds_length": 540,
"cdna_start": 170,
"cdna_end": null,
"cdna_length": 1408,
"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": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "n.38C>T",
"hgvs_p": null,
"transcript": "ENST00000564386.6",
"protein_id": "ENSP00000457630.2",
"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": 975,
"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": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "n.53C>T",
"hgvs_p": null,
"transcript": "ENST00000564477.1",
"protein_id": "ENSP00000455287.1",
"transcript_support_level": 5,
"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": 792,
"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": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000260643",
"gene_hgnc_id": null,
"hgvs_c": "n.53C>T",
"hgvs_p": null,
"transcript": "ENST00000640370.1",
"protein_id": "ENSP00000492599.1",
"transcript_support_level": 5,
"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": 2497,
"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": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "n.170C>T",
"hgvs_p": null,
"transcript": "NR_033249.2",
"protein_id": null,
"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": 1496,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"hgvs_c": "c.-65C>T",
"hgvs_p": null,
"transcript": "ENST00000566566.2",
"protein_id": "ENSP00000455019.2",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 104,
"cds_start": -4,
"cds_end": null,
"cds_length": 315,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 488,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "GCSH",
"gene_hgnc_id": 4208,
"dbsnp": "rs540997326",
"frequency_reference_population": 0.0037465007,
"hom_count_reference_population": 8,
"allele_count_reference_population": 4925,
"gnomad_exomes_af": 0.00382995,
"gnomad_genomes_af": 0.0031089,
"gnomad_exomes_ac": 4452,
"gnomad_genomes_ac": 473,
"gnomad_exomes_homalt": 4,
"gnomad_genomes_homalt": 4,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.0038013756275177,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.014,
"revel_prediction": "Benign",
"alphamissense_score": 0.12,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.52,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.391,
"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": -13,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6,BS1,BS2",
"acmg_by_gene": [
{
"score": -13,
"benign_score": 13,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6",
"BS1",
"BS2"
],
"verdict": "Benign",
"transcript": "ENST00000315467.9",
"gene_symbol": "GCSH",
"hgnc_id": 4208,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR,Unknown",
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val"
},
{
"score": -9,
"benign_score": 9,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6",
"BS2"
],
"verdict": "Benign",
"transcript": "ENST00000640345.1",
"gene_symbol": "ENSG00000284512",
"hgnc_id": null,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val"
},
{
"score": -9,
"benign_score": 9,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6",
"BS2"
],
"verdict": "Benign",
"transcript": "ENST00000564536.2",
"gene_symbol": "ENSG00000260643",
"hgnc_id": null,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.53C>T",
"hgvs_p": "p.Ala18Val"
}
],
"clinvar_disease": "Glycine encephalopathy,not provided",
"clinvar_classification": "Conflicting classifications of pathogenicity",
"clinvar_review_status": "criteria provided, conflicting classifications",
"clinvar_submissions_summary": "US:2 B:1",
"phenotype_combined": "Glycine encephalopathy|not provided",
"pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
"custom_annotations": null
}
],
"message": null
}