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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: 1-35736524-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=35736524&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 6,
"criteria": [
"PM2",
"BP4_Strong",
"BP6_Moderate"
],
"effects": [
"missense_variant"
],
"gene_symbol": "CLSPN",
"hgnc_id": 19715,
"hgvs_c": "c.3992G>A",
"hgvs_p": "p.Arg1331Gln",
"inheritance_mode": "AR",
"pathogenic_score": 2,
"score": -4,
"transcript": "NM_022111.4",
"verdict": "Likely_benign"
}
],
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong,BP6_Moderate",
"acmg_score": -4,
"allele_count_reference_population": 64,
"alphamissense_prediction": null,
"alphamissense_score": 0.0672,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.62,
"chr": "1",
"clinvar_classification": "Likely benign",
"clinvar_disease": "not specified",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"computational_prediction_selected": "Benign",
"computational_score_selected": 0.06094369292259216,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1339,
"aa_ref": "R",
"aa_start": 1331,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8512,
"cdna_start": 4100,
"cds_end": null,
"cds_length": 4020,
"cds_start": 3992,
"consequences": [
"missense_variant"
],
"exon_count": 25,
"exon_rank": 25,
"exon_rank_end": null,
"feature": "NM_022111.4",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3992G>A",
"hgvs_p": "p.Arg1331Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000318121.8",
"protein_coding": true,
"protein_id": "NP_071394.2",
"strand": false,
"transcript": "NM_022111.4",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1339,
"aa_ref": "R",
"aa_start": 1331,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 8512,
"cdna_start": 4100,
"cds_end": null,
"cds_length": 4020,
"cds_start": 3992,
"consequences": [
"missense_variant"
],
"exon_count": 25,
"exon_rank": 25,
"exon_rank_end": null,
"feature": "ENST00000318121.8",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3992G>A",
"hgvs_p": "p.Arg1331Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_022111.4",
"protein_coding": true,
"protein_id": "ENSP00000312995.3",
"strand": false,
"transcript": "ENST00000318121.8",
"transcript_support_level": 1
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1286,
"aa_ref": "R",
"aa_start": 1278,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4010,
"cdna_start": 3891,
"cds_end": null,
"cds_length": 3861,
"cds_start": 3833,
"consequences": [
"missense_variant"
],
"exon_count": 25,
"exon_rank": 25,
"exon_rank_end": null,
"feature": "ENST00000520551.1",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3833G>A",
"hgvs_p": "p.Arg1278Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000428848.1",
"strand": false,
"transcript": "ENST00000520551.1",
"transcript_support_level": 1
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1275,
"aa_ref": "R",
"aa_start": 1267,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3977,
"cdna_start": 3858,
"cds_end": null,
"cds_length": 3828,
"cds_start": 3800,
"consequences": [
"missense_variant"
],
"exon_count": 24,
"exon_rank": 24,
"exon_rank_end": null,
"feature": "ENST00000373220.7",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3800G>A",
"hgvs_p": "p.Arg1267Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000362317.3",
"strand": false,
"transcript": "ENST00000373220.7",
"transcript_support_level": 1
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 1332,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4769,
"cdna_start": null,
"cds_end": null,
"cds_length": 3999,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 25,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000251195.9",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3909+390G>A",
"hgvs_p": null,
"intron_rank": 24,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000251195.5",
"strand": false,
"transcript": "ENST00000251195.9",
"transcript_support_level": 1
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1335,
"aa_ref": "R",
"aa_start": 1327,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6385,
"cdna_start": 4112,
"cds_end": null,
"cds_length": 4008,
"cds_start": 3980,
"consequences": [
"missense_variant"
],
"exon_count": 25,
"exon_rank": 25,
"exon_rank_end": null,
"feature": "ENST00000939005.1",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3980G>A",
"hgvs_p": "p.Arg1327Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000609064.1",
"strand": false,
"transcript": "ENST00000939005.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1334,
"aa_ref": "R",
"aa_start": 1326,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6358,
"cdna_start": 4085,
"cds_end": null,
"cds_length": 4005,
"cds_start": 3977,
"consequences": [
"missense_variant"
],
"exon_count": 25,
"exon_rank": 25,
"exon_rank_end": null,
"feature": "ENST00000939006.1",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3977G>A",
"hgvs_p": "p.Arg1326Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000609065.1",
"strand": false,
"transcript": "ENST00000939006.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 1275,
"aa_ref": "R",
"aa_start": 1267,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8320,
"cdna_start": 3908,
"cds_end": null,
"cds_length": 3828,
"cds_start": 3800,
"consequences": [
"missense_variant"
],
"exon_count": 24,
"exon_rank": 24,
"exon_rank_end": null,
"feature": "NM_001190481.2",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3800G>A",
"hgvs_p": "p.Arg1267Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001177410.1",
"strand": false,
"transcript": "NM_001190481.2",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 1332,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4785,
"cdna_start": null,
"cds_end": null,
"cds_length": 3999,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 25,
"exon_rank": null,
"exon_rank_end": null,
"feature": "NM_001330490.2",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "c.3909+390G>A",
"hgvs_p": null,
"intron_rank": 24,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001317419.1",
"strand": false,
"transcript": "NM_001330490.2",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "pseudogene",
"canonical": false,
"cdna_end": null,
"cdna_length": 717,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 4,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000466308.1",
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"hgvs_c": "n.474G>A",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000466308.1",
"transcript_support_level": 3
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs115320551",
"effect": "missense_variant",
"frequency_reference_population": 0.000039829876,
"gene_hgnc_id": 19715,
"gene_symbol": "CLSPN",
"gnomad_exomes_ac": 51,
"gnomad_exomes_af": 0.0000350617,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_ac": 13,
"gnomad_genomes_af": 0.0000853825,
"gnomad_genomes_homalt": 0,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": "Likely benign",
"phenotype_combined": "not specified",
"phylop100way_prediction": "Benign",
"phylop100way_score": 0.448,
"pos": 35736524,
"ref": "C",
"revel_prediction": "Benign",
"revel_score": 0.025,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_022111.4"
}
]
}