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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: 10-103417888-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=10&pos=103417888&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 12,
"criteria": [
"BP4_Strong",
"BA1"
],
"effects": [
"missense_variant"
],
"gene_symbol": "PDCD11",
"hgnc_id": 13408,
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"inheritance_mode": "AD",
"pathogenic_score": 0,
"score": -12,
"transcript": "NM_001411058.1",
"verdict": "Benign"
},
{
"benign_score": 12,
"criteria": [
"BP4_Strong",
"BA1"
],
"effects": [
"splice_region_variant",
"intron_variant"
],
"gene_symbol": "ENSG00000301927",
"hgnc_id": null,
"hgvs_c": "n.251-3C>A",
"hgvs_p": null,
"inheritance_mode": "",
"pathogenic_score": 0,
"score": -12,
"transcript": "ENST00000782928.1",
"verdict": "Benign"
}
],
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BA1",
"acmg_score": -12,
"allele_count_reference_population": 101832,
"alphamissense_prediction": null,
"alphamissense_score": 0.076,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.82,
"chr": "10",
"clinvar_classification": "",
"clinvar_disease": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"computational_prediction_selected": "Benign",
"computational_score_selected": 0.0022095143795013428,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1871,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6477,
"cdna_start": 1983,
"cds_end": null,
"cds_length": 5616,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "NM_014976.2",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000369797.8",
"protein_coding": true,
"protein_id": "NP_055791.1",
"strand": true,
"transcript": "NM_014976.2",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1871,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 6477,
"cdna_start": 1983,
"cds_end": null,
"cds_length": 5616,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000369797.8",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_014976.2",
"protein_coding": true,
"protein_id": "ENSP00000358812.3",
"strand": true,
"transcript": "ENST00000369797.8",
"transcript_support_level": 1
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1897,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6507,
"cdna_start": 1935,
"cds_end": null,
"cds_length": 5694,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 37,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930114.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600173.1",
"strand": true,
"transcript": "ENST00000930114.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1872,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6445,
"cdna_start": 1948,
"cds_end": null,
"cds_length": 5619,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "NM_001411058.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001397987.1",
"strand": true,
"transcript": "NM_001411058.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1872,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6480,
"cdna_start": 1983,
"cds_end": null,
"cds_length": 5619,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "NM_001437421.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001424350.1",
"strand": true,
"transcript": "NM_001437421.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1872,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6467,
"cdna_start": 1983,
"cds_end": null,
"cds_length": 5619,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000649849.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000498205.1",
"strand": true,
"transcript": "ENST00000649849.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1872,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6448,
"cdna_start": 1948,
"cds_end": null,
"cds_length": 5619,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930107.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600166.1",
"strand": true,
"transcript": "ENST00000930107.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 1872,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6408,
"cdna_start": 1911,
"cds_end": null,
"cds_length": 5619,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930117.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600176.1",
"strand": true,
"transcript": "ENST00000930117.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
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"aa_length": 1871,
"aa_ref": "A",
"aa_start": 623,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6442,
"cdna_start": 1948,
"cds_end": null,
"cds_length": 5616,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "NM_001437420.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001424349.1",
"strand": true,
"transcript": "NM_001437420.1",
"transcript_support_level": null
},
{
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"aa_length": 1871,
"aa_ref": "A",
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"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6441,
"cdna_start": 1948,
"cds_end": null,
"cds_length": 5616,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930108.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600167.1",
"strand": true,
"transcript": "ENST00000930108.1",
"transcript_support_level": null
},
{
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"aa_ref": "A",
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"biotype": "protein_coding",
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"cdna_end": null,
"cdna_length": 6533,
"cdna_start": 2041,
"cds_end": null,
"cds_length": 5616,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 37,
"exon_rank": 15,
"exon_rank_end": null,
"feature": "ENST00000930109.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
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"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600168.1",
"strand": true,
"transcript": "ENST00000930109.1",
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},
{
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"biotype": "protein_coding",
"canonical": false,
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"cdna_start": 1910,
"cds_end": null,
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],
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"feature": "ENST00000930110.1",
"gene_hgnc_id": 13408,
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"hgvs_c": "c.1867G>T",
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"mane_plus": null,
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"protein_coding": true,
"protein_id": "ENSP00000600169.1",
"strand": true,
"transcript": "ENST00000930110.1",
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},
{
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"cdna_start": 2001,
"cds_end": null,
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"consequences": [
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],
"exon_count": 37,
"exon_rank": 15,
"exon_rank_end": null,
"feature": "ENST00000930116.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
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"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600175.1",
"strand": true,
"transcript": "ENST00000930116.1",
"transcript_support_level": null
},
{
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"aa_ref": "A",
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"biotype": "protein_coding",
"canonical": false,
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"cds_end": null,
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"consequences": [
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],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930111.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
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"mane_plus": null,
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"protein_coding": true,
"protein_id": "ENSP00000600170.1",
"strand": true,
"transcript": "ENST00000930111.1",
"transcript_support_level": null
},
{
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"biotype": "protein_coding",
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"cdna_length": 6385,
"cdna_start": 1954,
"cds_end": null,
"cds_length": 5553,
"cds_start": 1867,
"consequences": [
"missense_variant"
],
"exon_count": 35,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930112.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
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"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600171.1",
"strand": true,
"transcript": "ENST00000930112.1",
"transcript_support_level": null
},
{
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"aa_ref": "A",
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"biotype": "protein_coding",
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"cdna_end": null,
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"cdna_start": 1854,
"cds_end": null,
"cds_length": 5541,
"cds_start": 1792,
"consequences": [
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],
"exon_count": 36,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000930115.1",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1792G>T",
"hgvs_p": "p.Ala598Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000600174.1",
"strand": true,
"transcript": "ENST00000930115.1",
"transcript_support_level": null
},
{
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],
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"feature": "ENST00000902786.1",
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"hgvs_c": "c.1867G>T",
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},
{
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"consequences": [
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],
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"feature": "ENST00000930113.1",
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"gene_symbol": "PDCD11",
"hgvs_c": "c.1867G>T",
"hgvs_p": "p.Ala623Ser",
"intron_rank": null,
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"mane_plus": null,
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"protein_coding": true,
"protein_id": "ENSP00000600172.1",
"strand": true,
"transcript": "ENST00000930113.1",
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},
{
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"cds_end": null,
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"cds_start": 1618,
"consequences": [
"missense_variant"
],
"exon_count": 35,
"exon_rank": 13,
"exon_rank_end": null,
"feature": "XM_011539540.2",
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
"hgvs_c": "c.1618G>T",
"hgvs_p": "p.Ala540Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011537842.1",
"strand": true,
"transcript": "XM_011539540.2",
"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": 597,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_count": 2,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000782928.1",
"gene_hgnc_id": null,
"gene_symbol": "ENSG00000301927",
"hgvs_c": "n.251-3C>A",
"hgvs_p": null,
"intron_rank": 1,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000782928.1",
"transcript_support_level": null
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs11598673",
"effect": "missense_variant",
"frequency_reference_population": 0.06309231,
"gene_hgnc_id": 13408,
"gene_symbol": "PDCD11",
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}
]
}