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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: 13-102597143-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=13&pos=102597143&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "13",
"pos": 102597143,
"ref": "G",
"alt": "T",
"effect": "synonymous_variant",
"transcript": "NM_001330588.2",
"consequences": [
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "NM_001330588.2",
"protein_id": "NP_001317517.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1262,
"cds_start": 105,
"cds_end": null,
"cds_length": 3789,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 5484,
"mane_select": "ENST00000376052.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "ENST00000376052.5",
"protein_id": "ENSP00000365220.3",
"transcript_support_level": 5,
"aa_start": 35,
"aa_end": null,
"aa_length": 1262,
"cds_start": 105,
"cds_end": null,
"cds_length": 3789,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 5484,
"mane_select": "NM_001330588.2",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "ENST00000376065.8",
"protein_id": "ENSP00000365233.4",
"transcript_support_level": 1,
"aa_start": 35,
"aa_end": null,
"aa_length": 1249,
"cds_start": 105,
"cds_end": null,
"cds_length": 3750,
"cdna_start": 141,
"cdna_end": null,
"cdna_length": 3931,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "NM_001367947.1",
"protein_id": "NP_001354876.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1291,
"cds_start": 105,
"cds_end": null,
"cds_length": 3876,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 5571,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "NM_003291.4",
"protein_id": "NP_003282.2",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1249,
"cds_start": 105,
"cds_end": null,
"cds_length": 3750,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 5445,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.93G>T",
"hgvs_p": "p.Gly31Gly",
"transcript": "ENST00000651544.1",
"protein_id": "ENSP00000498728.1",
"transcript_support_level": null,
"aa_start": 31,
"aa_end": null,
"aa_length": 1179,
"cds_start": 93,
"cds_end": null,
"cds_length": 3540,
"cdna_start": 93,
"cdna_end": null,
"cdna_length": 4341,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "ENST00000652308.1",
"protein_id": "ENSP00000498955.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1173,
"cds_start": 105,
"cds_end": null,
"cds_length": 3522,
"cdna_start": 123,
"cdna_end": null,
"cdna_length": 3669,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "ENST00000493770.3",
"protein_id": "ENSP00000498777.2",
"transcript_support_level": 5,
"aa_start": 35,
"aa_end": null,
"aa_length": 419,
"cds_start": 105,
"cds_end": null,
"cds_length": 1260,
"cdna_start": 134,
"cdna_end": null,
"cdna_length": 3716,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "XM_005254070.3",
"protein_id": "XP_005254127.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1304,
"cds_start": 105,
"cds_end": null,
"cds_length": 3915,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 5610,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "XM_047430578.1",
"protein_id": "XP_047286534.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1162,
"cds_start": 105,
"cds_end": null,
"cds_length": 3489,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 3647,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "XM_047430579.1",
"protein_id": "XP_047286535.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1137,
"cds_start": 105,
"cds_end": null,
"cds_length": 3414,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 3643,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly",
"transcript": "XM_047430580.1",
"protein_id": "XP_047286536.1",
"transcript_support_level": null,
"aa_start": 35,
"aa_end": null,
"aa_length": 1124,
"cds_start": 105,
"cds_end": null,
"cds_length": 3375,
"cdna_start": 158,
"cdna_end": null,
"cdna_length": 3606,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"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": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.111G>T",
"hgvs_p": null,
"transcript": "ENST00000490010.1",
"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": 691,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.105G>T",
"hgvs_p": null,
"transcript": "ENST00000651448.1",
"protein_id": "ENSP00000499164.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
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"cdna_start": null,
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"cdna_length": 5962,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.186G>T",
"hgvs_p": null,
"transcript": "ENST00000698381.1",
"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": 5522,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.186G>T",
"hgvs_p": null,
"transcript": "ENST00000698382.1",
"protein_id": null,
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
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"cdna_start": null,
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"mane_select": null,
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"biotype": null,
"feature": null
},
{
"aa_ref": null,
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"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.153G>T",
"hgvs_p": null,
"transcript": "ENST00000698383.1",
"protein_id": null,
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
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"cdna_start": null,
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"cdna_length": 5336,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.105G>T",
"hgvs_p": null,
"transcript": "ENST00000698384.1",
"protein_id": "ENSP00000513690.1",
"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,
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"cdna_length": 6815,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
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"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.139G>T",
"hgvs_p": null,
"transcript": "ENST00000698385.1",
"protein_id": null,
"transcript_support_level": null,
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"aa_end": null,
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"mane_select": null,
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"biotype": null,
"feature": null
},
{
"aa_ref": null,
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"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.109G>T",
"hgvs_p": null,
"transcript": "ENST00000698386.1",
"protein_id": null,
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
"cds_end": null,
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"cdna_start": null,
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"cdna_length": 1854,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"hgvs_c": "n.158G>T",
"hgvs_p": null,
"transcript": "NR_160411.1",
"protein_id": null,
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
"cds_end": null,
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"cdna_start": null,
"cdna_end": null,
"cdna_length": 5456,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LOC107984588",
"gene_hgnc_id": null,
"hgvs_c": "n.-201C>A",
"hgvs_p": null,
"transcript": "XR_001749984.3",
"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": 1560,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "TPP2",
"gene_hgnc_id": 12016,
"dbsnp": "rs1879010753",
"frequency_reference_population": null,
"hom_count_reference_population": 0,
"allele_count_reference_population": 0,
"gnomad_exomes_af": null,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.47999998927116394,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.48,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.201,
"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": -5,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong,BP6_Moderate,BP7",
"acmg_by_gene": [
{
"score": -5,
"benign_score": 7,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong",
"BP6_Moderate",
"BP7"
],
"verdict": "Likely_benign",
"transcript": "NM_001330588.2",
"gene_symbol": "TPP2",
"hgnc_id": 12016,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.105G>T",
"hgvs_p": "p.Gly35Gly"
},
{
"score": -4,
"benign_score": 6,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong",
"BP6_Moderate"
],
"verdict": "Likely_benign",
"transcript": "XR_001749984.3",
"gene_symbol": "LOC107984588",
"hgnc_id": null,
"effects": [
"upstream_gene_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.-201C>A",
"hgvs_p": null
}
],
"clinvar_disease": " and premature immunosenescence associated with tripeptidyl-peptidase II deficiency, immunodeficiency,Evans syndrome",
"clinvar_classification": "Likely benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"phenotype_combined": "Evans syndrome, immunodeficiency, and premature immunosenescence associated with tripeptidyl-peptidase II deficiency",
"pathogenicity_classification_combined": "Likely benign",
"custom_annotations": null
}
],
"message": null
}