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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: 16-8894076-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=8894076&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "16",
"pos": 8894076,
"ref": "T",
"alt": "C",
"effect": "synonymous_variant",
"transcript": "NM_003470.3",
"consequences": [
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3231A>G",
"hgvs_p": "p.Leu1077Leu",
"transcript": "NM_003470.3",
"protein_id": "NP_003461.2",
"transcript_support_level": null,
"aa_start": 1077,
"aa_end": null,
"aa_length": 1102,
"cds_start": 3231,
"cds_end": null,
"cds_length": 3309,
"cdna_start": 3852,
"cdna_end": null,
"cdna_length": 5831,
"mane_select": "ENST00000344836.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_003470.3"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3231A>G",
"hgvs_p": "p.Leu1077Leu",
"transcript": "ENST00000344836.9",
"protein_id": "ENSP00000343535.4",
"transcript_support_level": 1,
"aa_start": 1077,
"aa_end": null,
"aa_length": 1102,
"cds_start": 3231,
"cds_end": null,
"cds_length": 3309,
"cdna_start": 3852,
"cdna_end": null,
"cdna_length": 5831,
"mane_select": "NM_003470.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000344836.9"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3183A>G",
"hgvs_p": "p.Leu1061Leu",
"transcript": "ENST00000381886.8",
"protein_id": "ENSP00000371310.4",
"transcript_support_level": 1,
"aa_start": 1061,
"aa_end": null,
"aa_length": 1086,
"cds_start": 3183,
"cds_end": null,
"cds_length": 3261,
"cdna_start": 3299,
"cdna_end": null,
"cdna_length": 3587,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000381886.8"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3336A>G",
"hgvs_p": "p.Leu1112Leu",
"transcript": "ENST00000673704.1",
"protein_id": "ENSP00000501290.1",
"transcript_support_level": null,
"aa_start": 1112,
"aa_end": null,
"aa_length": 1137,
"cds_start": 3336,
"cds_end": null,
"cds_length": 3414,
"cdna_start": 3387,
"cdna_end": null,
"cdna_length": 5366,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000673704.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3267A>G",
"hgvs_p": "p.Leu1089Leu",
"transcript": "ENST00000923082.1",
"protein_id": "ENSP00000593141.1",
"transcript_support_level": null,
"aa_start": 1089,
"aa_end": null,
"aa_length": 1114,
"cds_start": 3267,
"cds_end": null,
"cds_length": 3345,
"cdna_start": 3585,
"cdna_end": null,
"cdna_length": 4169,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923082.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3261A>G",
"hgvs_p": "p.Leu1087Leu",
"transcript": "ENST00000923081.1",
"protein_id": "ENSP00000593140.1",
"transcript_support_level": null,
"aa_start": 1087,
"aa_end": null,
"aa_length": 1112,
"cds_start": 3261,
"cds_end": null,
"cds_length": 3339,
"cdna_start": 3900,
"cdna_end": null,
"cdna_length": 5204,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923081.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3228A>G",
"hgvs_p": "p.Leu1076Leu",
"transcript": "ENST00000923079.1",
"protein_id": "ENSP00000593138.1",
"transcript_support_level": null,
"aa_start": 1076,
"aa_end": null,
"aa_length": 1101,
"cds_start": 3228,
"cds_end": null,
"cds_length": 3306,
"cdna_start": 3910,
"cdna_end": null,
"cdna_length": 5211,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923079.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3225A>G",
"hgvs_p": "p.Leu1075Leu",
"transcript": "ENST00000923078.1",
"protein_id": "ENSP00000593137.1",
"transcript_support_level": null,
"aa_start": 1075,
"aa_end": null,
"aa_length": 1100,
"cds_start": 3225,
"cds_end": null,
"cds_length": 3303,
"cdna_start": 3912,
"cdna_end": null,
"cdna_length": 5891,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923078.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3183A>G",
"hgvs_p": "p.Leu1061Leu",
"transcript": "NM_001286457.2",
"protein_id": "NP_001273386.2",
"transcript_support_level": null,
"aa_start": 1061,
"aa_end": null,
"aa_length": 1086,
"cds_start": 3183,
"cds_end": null,
"cds_length": 3261,
"cdna_start": 3209,
"cdna_end": null,
"cdna_length": 5188,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001286457.2"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 30,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3159A>G",
"hgvs_p": "p.Leu1053Leu",
"transcript": "ENST00000969523.1",
"protein_id": "ENSP00000639582.1",
"transcript_support_level": null,
"aa_start": 1053,
"aa_end": null,
"aa_length": 1078,
"cds_start": 3159,
"cds_end": null,
"cds_length": 3237,
"cdna_start": 3803,
"cdna_end": null,
"cdna_length": 5779,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000969523.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 30,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3126A>G",
"hgvs_p": "p.Leu1042Leu",
"transcript": "ENST00000923080.1",
"protein_id": "ENSP00000593139.1",
"transcript_support_level": null,
"aa_start": 1042,
"aa_end": null,
"aa_length": 1067,
"cds_start": 3126,
"cds_end": null,
"cds_length": 3204,
"cdna_start": 3781,
"cdna_end": null,
"cdna_length": 5082,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923080.1"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3057A>G",
"hgvs_p": "p.Leu1019Leu",
"transcript": "NM_001321858.2",
"protein_id": "NP_001308787.1",
"transcript_support_level": null,
"aa_start": 1019,
"aa_end": null,
"aa_length": 1044,
"cds_start": 3057,
"cds_end": null,
"cds_length": 3135,
"cdna_start": 3225,
"cdna_end": null,
"cdna_length": 5204,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001321858.2"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 32,
"exon_rank_end": null,
"exon_count": 32,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.2934A>G",
"hgvs_p": "p.Leu978Leu",
"transcript": "NM_001286458.2",
"protein_id": "NP_001273387.1",
"transcript_support_level": null,
"aa_start": 978,
"aa_end": null,
"aa_length": 1003,
"cds_start": 2934,
"cds_end": null,
"cds_length": 3012,
"cdna_start": 3384,
"cdna_end": null,
"cdna_length": 5363,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001286458.2"
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "c.3057A>G",
"hgvs_p": "p.Leu1019Leu",
"transcript": "XM_047434605.1",
"protein_id": "XP_047290561.1",
"transcript_support_level": null,
"aa_start": 1019,
"aa_end": null,
"aa_length": 1044,
"cds_start": 3057,
"cds_end": null,
"cds_length": 3135,
"cdna_start": 3175,
"cdna_end": null,
"cdna_length": 5154,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047434605.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "n.*2816A>G",
"hgvs_p": null,
"transcript": "ENST00000563961.5",
"protein_id": "ENSP00000454362.1",
"transcript_support_level": 5,
"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": 4533,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000563961.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 32,
"exon_rank_end": null,
"exon_count": 32,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "n.*3214A>G",
"hgvs_p": null,
"transcript": "ENST00000565455.5",
"protein_id": "ENSP00000456258.1",
"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": 3554,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000565455.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "n.3212A>G",
"hgvs_p": null,
"transcript": "NR_135826.2",
"protein_id": null,
"transcript_support_level": null,
"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": 5191,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_135826.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 31,
"exon_rank_end": null,
"exon_count": 31,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "n.*2816A>G",
"hgvs_p": null,
"transcript": "ENST00000563961.5",
"protein_id": "ENSP00000454362.1",
"transcript_support_level": 5,
"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": 4533,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000563961.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 32,
"exon_rank_end": null,
"exon_count": 32,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"hgvs_c": "n.*3214A>G",
"hgvs_p": null,
"transcript": "ENST00000565455.5",
"protein_id": "ENSP00000456258.1",
"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": 3554,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000565455.5"
}
],
"gene_symbol": "USP7",
"gene_hgnc_id": 12630,
"dbsnp": "rs368837913",
"frequency_reference_population": 0.00012886118,
"hom_count_reference_population": 0,
"allele_count_reference_population": 208,
"gnomad_exomes_af": 0.000119709,
"gnomad_genomes_af": 0.000216737,
"gnomad_exomes_ac": 175,
"gnomad_genomes_ac": 33,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.6000000238418579,
"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": -0.6,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.284,
"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": -11,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Moderate,BP7,BS2",
"acmg_by_gene": [
{
"score": -11,
"benign_score": 11,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Moderate",
"BP7",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_003470.3",
"gene_symbol": "USP7",
"hgnc_id": 12630,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.3231A>G",
"hgvs_p": "p.Leu1077Leu"
}
],
"clinvar_disease": "USP7-related disorder,not provided",
"clinvar_classification": "Likely benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"phenotype_combined": "not provided|USP7-related disorder",
"pathogenicity_classification_combined": "Likely benign",
"custom_annotations": null
}
],
"message": null
}