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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: 4-663143-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=663143&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "4",
"pos": 663143,
"ref": "G",
"alt": "T",
"effect": "stop_gained",
"transcript": "NM_001440547.1",
"consequences": [
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "NM_000283.4",
"protein_id": "NP_000274.3",
"transcript_support_level": null,
"aa_start": 626,
"aa_end": null,
"aa_length": 854,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2565,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000496514.6",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000283.4"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "ENST00000496514.6",
"protein_id": "ENSP00000420295.1",
"transcript_support_level": 1,
"aa_start": 626,
"aa_end": null,
"aa_length": 854,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2565,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_000283.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000496514.6"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "ENST00000255622.10",
"protein_id": "ENSP00000255622.6",
"transcript_support_level": 1,
"aa_start": 626,
"aa_end": null,
"aa_length": 853,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2562,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000255622.10"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "NM_001440547.1",
"protein_id": "NP_001427476.1",
"transcript_support_level": null,
"aa_start": 626,
"aa_end": null,
"aa_length": 868,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2607,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001440547.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "NM_001145291.2",
"protein_id": "NP_001138763.2",
"transcript_support_level": null,
"aa_start": 626,
"aa_end": null,
"aa_length": 853,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2562,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001145291.2"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "NM_001440548.1",
"protein_id": "NP_001427477.1",
"transcript_support_level": null,
"aa_start": 626,
"aa_end": null,
"aa_length": 784,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2355,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001440548.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "NM_001350154.3",
"protein_id": "NP_001337083.1",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 589,
"cds_start": 1039,
"cds_end": null,
"cds_length": 1770,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001350154.3"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "NM_001145292.2",
"protein_id": "NP_001138764.2",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 575,
"cds_start": 1039,
"cds_end": null,
"cds_length": 1728,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001145292.2"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "NM_001379246.1",
"protein_id": "NP_001366175.1",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 575,
"cds_start": 1039,
"cds_end": null,
"cds_length": 1728,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001379246.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "NM_001379247.1",
"protein_id": "NP_001366176.1",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 575,
"cds_start": 1039,
"cds_end": null,
"cds_length": 1728,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001379247.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "ENST00000429163.6",
"protein_id": "ENSP00000406334.2",
"transcript_support_level": 2,
"aa_start": 347,
"aa_end": null,
"aa_length": 575,
"cds_start": 1039,
"cds_end": null,
"cds_length": 1728,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000429163.6"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.721G>T",
"hgvs_p": "p.Glu241*",
"transcript": "NM_001350155.3",
"protein_id": "NP_001337084.1",
"transcript_support_level": null,
"aa_start": 241,
"aa_end": null,
"aa_length": 483,
"cds_start": 721,
"cds_end": null,
"cds_length": 1452,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001350155.3"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "XM_047415772.1",
"protein_id": "XP_047271728.1",
"transcript_support_level": null,
"aa_start": 626,
"aa_end": null,
"aa_length": 949,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2850,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047415772.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*",
"transcript": "XM_047415773.1",
"protein_id": "XP_047271729.1",
"transcript_support_level": null,
"aa_start": 626,
"aa_end": null,
"aa_length": 935,
"cds_start": 1876,
"cds_end": null,
"cds_length": 2808,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047415773.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "XM_047415775.1",
"protein_id": "XP_047271731.1",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 670,
"cds_start": 1039,
"cds_end": null,
"cds_length": 2013,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047415775.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "XM_047415776.1",
"protein_id": "XP_047271732.1",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 670,
"cds_start": 1039,
"cds_end": null,
"cds_length": 2013,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047415776.1"
},
{
"aa_ref": "E",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"hgvs_c": "c.1039G>T",
"hgvs_p": "p.Glu347*",
"transcript": "XM_047415777.1",
"protein_id": "XP_047271733.1",
"transcript_support_level": null,
"aa_start": 347,
"aa_end": null,
"aa_length": 670,
"cds_start": 1039,
"cds_end": null,
"cds_length": 2013,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047415777.1"
},
{
"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": 2,
"intron_rank_end": null,
"gene_symbol": "ENSG00000272927",
"gene_hgnc_id": 58704,
"hgvs_c": "n.236+59C>A",
"hgvs_p": null,
"transcript": "ENST00000609172.2",
"protein_id": null,
"transcript_support_level": 6,
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000609172.2"
},
{
"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": 2,
"intron_rank_end": null,
"gene_symbol": "ENSG00000272927",
"gene_hgnc_id": 58704,
"hgvs_c": "n.233+59C>A",
"hgvs_p": null,
"transcript": "ENST00000784562.1",
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000784562.1"
},
{
"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": 2,
"intron_rank_end": null,
"gene_symbol": "ENSG00000272927",
"gene_hgnc_id": 58704,
"hgvs_c": "n.303+59C>A",
"hgvs_p": null,
"transcript": "ENST00000784563.1",
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000784563.1"
}
],
"gene_symbol": "PDE6B",
"gene_hgnc_id": 8786,
"dbsnp": "rs758052437",
"frequency_reference_population": 6.8475515e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84755e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.6499999761581421,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.7400000095367432,
"splice_prediction_selected": "Pathogenic",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.65,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 9.169,
"phylop100way_prediction": "Pathogenic",
"spliceai_max_score": 0.74,
"spliceai_max_prediction": "Pathogenic",
"dbscsnv_ada_score": null,
"dbscsnv_ada_prediction": null,
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": 12,
"acmg_classification": "Pathogenic",
"acmg_criteria": "PVS1,PM2,PP3,PP5",
"acmg_by_gene": [
{
"score": 12,
"benign_score": 0,
"pathogenic_score": 12,
"criteria": [
"PVS1",
"PM2",
"PP3",
"PP5"
],
"verdict": "Pathogenic",
"transcript": "NM_001440547.1",
"gene_symbol": "PDE6B",
"hgnc_id": 8786,
"effects": [
"stop_gained"
],
"inheritance_mode": "AD,AR",
"hgvs_c": "c.1876G>T",
"hgvs_p": "p.Glu626*"
},
{
"score": 4,
"benign_score": 0,
"pathogenic_score": 4,
"criteria": [
"PM2",
"PP3",
"PP5"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000784562.1",
"gene_symbol": "ENSG00000272927",
"hgnc_id": 58704,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.233+59C>A",
"hgvs_p": null
}
],
"clinvar_disease": "Retinitis pigmentosa 40",
"clinvar_classification": "Likely pathogenic",
"clinvar_review_status": "no assertion criteria provided",
"clinvar_submissions_summary": "null",
"phenotype_combined": "Retinitis pigmentosa 40",
"pathogenicity_classification_combined": "Likely pathogenic",
"custom_annotations": null
}
],
"message": null
}