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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: X-106818694-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=106818694&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 106818694,
"ref": "G",
"alt": "A",
"effect": "synonymous_variant",
"transcript": "NM_017752.3",
"consequences": [
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "NM_017752.3",
"protein_id": "NP_060222.2",
"transcript_support_level": null,
"aa_start": 54,
"aa_end": null,
"aa_length": 1120,
"cds_start": 162,
"cds_end": null,
"cds_length": 3363,
"cdna_start": 343,
"cdna_end": null,
"cdna_length": 5729,
"mane_select": "ENST00000357242.10",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "ENST00000357242.10",
"protein_id": "ENSP00000349781.5",
"transcript_support_level": 1,
"aa_start": 54,
"aa_end": null,
"aa_length": 1120,
"cds_start": 162,
"cds_end": null,
"cds_length": 3363,
"cdna_start": 343,
"cdna_end": null,
"cdna_length": 5729,
"mane_select": "NM_017752.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "ENST00000310452.6",
"protein_id": "ENSP00000310675.2",
"transcript_support_level": 1,
"aa_start": 54,
"aa_end": null,
"aa_length": 632,
"cds_start": 162,
"cds_end": null,
"cds_length": 1899,
"cdna_start": 327,
"cdna_end": null,
"cdna_length": 2589,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "ENST00000481617.6",
"protein_id": "ENSP00000421375.1",
"transcript_support_level": 1,
"aa_start": 54,
"aa_end": null,
"aa_length": 419,
"cds_start": 162,
"cds_end": null,
"cds_length": 1260,
"cdna_start": 311,
"cdna_end": null,
"cdna_length": 4098,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "ENST00000276175.7",
"protein_id": "ENSP00000276175.3",
"transcript_support_level": 5,
"aa_start": 54,
"aa_end": null,
"aa_length": 1114,
"cds_start": 162,
"cds_end": null,
"cds_length": 3345,
"cdna_start": 203,
"cdna_end": null,
"cdna_length": 3538,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "NM_001441214.1",
"protein_id": "NP_001428143.1",
"transcript_support_level": null,
"aa_start": 54,
"aa_end": null,
"aa_length": 1070,
"cds_start": 162,
"cds_end": null,
"cds_length": 3213,
"cdna_start": 343,
"cdna_end": null,
"cdna_length": 5579,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "NM_198881.2",
"protein_id": "NP_942582.1",
"transcript_support_level": null,
"aa_start": 54,
"aa_end": null,
"aa_length": 632,
"cds_start": 162,
"cds_end": null,
"cds_length": 1899,
"cdna_start": 343,
"cdna_end": null,
"cdna_length": 2607,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu",
"transcript": "XM_047442229.1",
"protein_id": "XP_047298185.1",
"transcript_support_level": null,
"aa_start": 54,
"aa_end": null,
"aa_length": 582,
"cds_start": 162,
"cds_end": null,
"cds_length": 1749,
"cdna_start": 343,
"cdna_end": null,
"cdna_length": 2457,
"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": 2,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "n.343G>A",
"hgvs_p": null,
"transcript": "XR_001755701.2",
"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": 2319,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.-133G>A",
"hgvs_p": null,
"transcript": "NM_001441215.1",
"protein_id": "NP_001428144.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1022,
"cds_start": -4,
"cds_end": null,
"cds_length": 3069,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5551,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"hgvs_c": "c.-133G>A",
"hgvs_p": null,
"transcript": "ENST00000460545.1",
"protein_id": "ENSP00000422353.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 21,
"cds_start": -4,
"cds_end": null,
"cds_length": 66,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 496,
"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": "MORC4",
"gene_hgnc_id": 23485,
"hgvs_c": "c.111-2908C>T",
"hgvs_p": null,
"transcript": "ENST00000604604.1",
"protein_id": "ENSP00000474750.1",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 37,
"cds_start": -4,
"cds_end": null,
"cds_length": 114,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2027,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "TBC1D8B",
"gene_hgnc_id": 24715,
"dbsnp": "rs6523896",
"frequency_reference_population": 0.012303291,
"hom_count_reference_population": 5194,
"allele_count_reference_population": 14828,
"gnomad_exomes_af": 0.00704045,
"gnomad_genomes_af": 0.0644992,
"gnomad_exomes_ac": 7708,
"gnomad_genomes_ac": 7120,
"gnomad_exomes_homalt": 593,
"gnomad_genomes_homalt": 599,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.44999998807907104,
"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": -0.45,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.977,
"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": -19,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Moderate,BP6_Very_Strong,BP7,BA1",
"acmg_by_gene": [
{
"score": -19,
"benign_score": 19,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BP6_Very_Strong",
"BP7",
"BA1"
],
"verdict": "Benign",
"transcript": "NM_017752.3",
"gene_symbol": "TBC1D8B",
"hgnc_id": 24715,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "XL,AD",
"hgvs_c": "c.162G>A",
"hgvs_p": "p.Leu54Leu"
},
{
"score": -18,
"benign_score": 18,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BP6_Very_Strong",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000604604.1",
"gene_symbol": "MORC4",
"hgnc_id": 23485,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.111-2908C>T",
"hgvs_p": null
}
],
"clinvar_disease": "not provided",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:3",
"phenotype_combined": "not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}