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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: 4-38804475-T-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=38804475&ref=T&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "4",
"pos": 38804475,
"ref": "T",
"alt": "A",
"effect": "intron_variant",
"transcript": "ENST00000308979.7",
"consequences": [
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-236-93A>T",
"hgvs_p": null,
"transcript": "NM_003263.4",
"protein_id": "NP_003254.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 786,
"cds_start": -4,
"cds_end": null,
"cds_length": 2361,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2851,
"mane_select": "ENST00000308979.7",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-236-93A>T",
"hgvs_p": null,
"transcript": "ENST00000308979.7",
"protein_id": "ENSP00000354932.2",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 786,
"cds_start": -4,
"cds_end": null,
"cds_length": 2361,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2851,
"mane_select": "NM_003263.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-307-22A>T",
"hgvs_p": null,
"transcript": "ENST00000502213.7",
"protein_id": "ENSP00000421259.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 786,
"cds_start": -4,
"cds_end": null,
"cds_length": 2361,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 11620,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-68+279A>T",
"hgvs_p": null,
"transcript": "ENST00000505940.1",
"protein_id": "ENSP00000421856.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": 160,
"cds_start": -4,
"cds_end": null,
"cds_length": 483,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 648,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-144-93A>T",
"hgvs_p": null,
"transcript": "ENST00000515861.5",
"protein_id": "ENSP00000423017.1",
"transcript_support_level": 4,
"aa_start": null,
"aa_end": null,
"aa_length": 89,
"cds_start": -4,
"cds_end": null,
"cds_length": 271,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 578,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-236-93A>T",
"hgvs_p": null,
"transcript": "ENST00000506146.5",
"protein_id": "ENSP00000423725.1",
"transcript_support_level": 4,
"aa_start": null,
"aa_end": null,
"aa_length": 47,
"cds_start": -4,
"cds_end": null,
"cds_length": 146,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 555,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "c.-68+637A>T",
"hgvs_p": null,
"transcript": "ENST00000508364.1",
"protein_id": "ENSP00000424894.1",
"transcript_support_level": 4,
"aa_start": null,
"aa_end": null,
"aa_length": 22,
"cds_start": -4,
"cds_end": null,
"cds_length": 71,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 605,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "n.67-93A>T",
"hgvs_p": null,
"transcript": "ENST00000505744.6",
"protein_id": null,
"transcript_support_level": 3,
"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": 1525,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "n.423-93A>T",
"hgvs_p": null,
"transcript": "ENST00000508535.1",
"protein_id": null,
"transcript_support_level": 4,
"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": 578,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
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"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
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"exon_count": 3,
"intron_rank": 1,
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"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "n.37-93A>T",
"hgvs_p": null,
"transcript": "ENST00000509754.5",
"protein_id": null,
"transcript_support_level": 4,
"aa_start": null,
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"cds_start": -4,
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"mane_select": null,
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"biotype": null,
"feature": null
},
{
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"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"hgvs_c": "n.38+279A>T",
"hgvs_p": null,
"transcript": "ENST00000510552.2",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
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"aa_length": null,
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},
{
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"strand": true,
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"intron_variant"
],
"exon_rank": null,
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"exon_count": 2,
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"gene_symbol": "ENSG00000306984",
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"transcript": "ENST00000822410.1",
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},
{
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"strand": false,
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"intron_variant"
],
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"gene_symbol": "TLR1",
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"hgvs_c": "c.-236-93A>T",
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"transcript": "XM_005262662.6",
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},
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],
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"gene_symbol": "TLR1",
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"hgvs_c": "c.-160+279A>T",
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"transcript": "XM_011513742.4",
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},
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],
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"gene_symbol": "TLR1",
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},
{
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],
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"exon_count": 4,
"intron_rank": 1,
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"gene_symbol": "TLR1",
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"hgvs_c": "c.-236-93A>T",
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"transcript": "XM_017008571.3",
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},
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},
{
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],
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"gene_symbol": "TLR1",
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"hgvs_c": "c.-160+279A>T",
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"transcript": "XM_024454196.2",
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},
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],
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],
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},
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],
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"intron_rank": 1,
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"gene_symbol": "TLR1",
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"hgvs_c": "n.39-93A>T",
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},
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],
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"gene_symbol": "TLR1",
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"hgvs_p": null,
"transcript": "XR_925165.3",
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"feature": null
}
],
"gene_symbol": "TLR1",
"gene_hgnc_id": 11847,
"dbsnp": "rs5743562",
"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": -0.6299999952316284,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.019999999552965164,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.63,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.164,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.02,
"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": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000308979.7",
"gene_symbol": "TLR1",
"hgnc_id": 11847,
"effects": [
"intron_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.-236-93A>T",
"hgvs_p": null
},
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000822410.1",
"gene_symbol": "ENSG00000306984",
"hgnc_id": null,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.292-1055T>A",
"hgvs_p": null
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}