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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: 4-39225033-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=39225033&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "4",
"pos": 39225033,
"ref": "A",
"alt": "G",
"effect": "splice_region_variant,synonymous_variant",
"transcript": "NM_025132.4",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "NM_025132.4",
"protein_id": "NP_079408.3",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 1342,
"cds_start": 1629,
"cds_end": null,
"cds_length": 4029,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000399820.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_025132.4"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "ENST00000399820.8",
"protein_id": "ENSP00000382717.3",
"transcript_support_level": 1,
"aa_start": 543,
"aa_end": null,
"aa_length": 1342,
"cds_start": 1629,
"cds_end": null,
"cds_length": 4029,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_025132.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000399820.8"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "ENST00000959578.1",
"protein_id": "ENSP00000629637.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 1346,
"cds_start": 1629,
"cds_end": null,
"cds_length": 4041,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000959578.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1563A>G",
"hgvs_p": "p.Pro521Pro",
"transcript": "ENST00000919861.1",
"protein_id": "ENSP00000589920.1",
"transcript_support_level": null,
"aa_start": 521,
"aa_end": null,
"aa_length": 1320,
"cds_start": 1563,
"cds_end": null,
"cds_length": 3963,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000919861.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1563A>G",
"hgvs_p": "p.Pro521Pro",
"transcript": "ENST00000867847.1",
"protein_id": "ENSP00000537906.1",
"transcript_support_level": null,
"aa_start": 521,
"aa_end": null,
"aa_length": 1319,
"cds_start": 1563,
"cds_end": null,
"cds_length": 3960,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867847.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "ENST00000867846.1",
"protein_id": "ENSP00000537905.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 1316,
"cds_start": 1629,
"cds_end": null,
"cds_length": 3951,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867846.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1149A>G",
"hgvs_p": "p.Pro383Pro",
"transcript": "NM_001317924.2",
"protein_id": "NP_001304853.1",
"transcript_support_level": null,
"aa_start": 383,
"aa_end": null,
"aa_length": 1182,
"cds_start": 1149,
"cds_end": null,
"cds_length": 3549,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001317924.2"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "XM_011513724.2",
"protein_id": "XP_011512026.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 1346,
"cds_start": 1629,
"cds_end": null,
"cds_length": 4041,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011513724.2"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1563A>G",
"hgvs_p": "p.Pro521Pro",
"transcript": "XM_011513725.3",
"protein_id": "XP_011512027.1",
"transcript_support_level": null,
"aa_start": 521,
"aa_end": null,
"aa_length": 1324,
"cds_start": 1563,
"cds_end": null,
"cds_length": 3975,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011513725.3"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1563A>G",
"hgvs_p": "p.Pro521Pro",
"transcript": "XM_047416030.1",
"protein_id": "XP_047271986.1",
"transcript_support_level": null,
"aa_start": 521,
"aa_end": null,
"aa_length": 1320,
"cds_start": 1563,
"cds_end": null,
"cds_length": 3963,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047416030.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 33,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "XM_047416031.1",
"protein_id": "XP_047271987.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 1195,
"cds_start": 1629,
"cds_end": null,
"cds_length": 3588,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047416031.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 33,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "XM_047416032.1",
"protein_id": "XP_047271988.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 1191,
"cds_start": 1629,
"cds_end": null,
"cds_length": 3576,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047416032.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 33,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1149A>G",
"hgvs_p": "p.Pro383Pro",
"transcript": "XM_047416033.1",
"protein_id": "XP_047271989.1",
"transcript_support_level": null,
"aa_start": 383,
"aa_end": null,
"aa_length": 1186,
"cds_start": 1149,
"cds_end": null,
"cds_length": 3561,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047416033.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "XM_047416034.1",
"protein_id": "XP_047271990.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 969,
"cds_start": 1629,
"cds_end": null,
"cds_length": 2910,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047416034.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"splice_region_variant",
"synonymous_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro",
"transcript": "XM_047416035.1",
"protein_id": "XP_047271991.1",
"transcript_support_level": null,
"aa_start": 543,
"aa_end": null,
"aa_length": 761,
"cds_start": 1629,
"cds_end": null,
"cds_length": 2286,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047416035.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"splice_region_variant",
"non_coding_transcript_exon_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "n.*1210A>G",
"hgvs_p": null,
"transcript": "ENST00000506869.5",
"protein_id": "ENSP00000424319.1",
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000506869.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"splice_region_variant",
"non_coding_transcript_exon_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "n.627A>G",
"hgvs_p": null,
"transcript": "ENST00000512095.5",
"protein_id": null,
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000512095.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 36,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "n.*1210A>G",
"hgvs_p": null,
"transcript": "ENST00000506869.5",
"protein_id": "ENSP00000424319.1",
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000506869.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"hgvs_c": "n.41-3525A>G",
"hgvs_p": null,
"transcript": "ENST00000511729.5",
"protein_id": null,
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000511729.5"
}
],
"gene_symbol": "WDR19",
"gene_hgnc_id": 18340,
"dbsnp": "rs776659376",
"frequency_reference_population": 0.000022193046,
"hom_count_reference_population": 0,
"allele_count_reference_population": 31,
"gnomad_exomes_af": 0.000022193,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 31,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"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": 0.052000001072883606,
"splice_prediction_selected": "Benign",
"splice_source_selected": "dbscSNV1_RF",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.45,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -1.129,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0,
"spliceai_max_prediction": "Benign",
"dbscsnv_ada_score": 0.0000823492036524953,
"dbscsnv_ada_prediction": "Benign",
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Moderate,BP6,BP7",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate",
"BP6",
"BP7"
],
"verdict": "Likely_benign",
"transcript": "NM_025132.4",
"gene_symbol": "WDR19",
"hgnc_id": 18340,
"effects": [
"splice_region_variant",
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1629A>G",
"hgvs_p": "p.Pro543Pro"
}
],
"clinvar_disease": "Asphyxiating thoracic dystrophy 5,Senior-Loken syndrome 8,not provided,not specified",
"clinvar_classification": "Conflicting classifications of pathogenicity",
"clinvar_review_status": "criteria provided, conflicting classifications",
"clinvar_submissions_summary": "US:1 LB:2",
"phenotype_combined": "not specified|not provided|Senior-Loken syndrome 8;Asphyxiating thoracic dystrophy 5",
"pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
"custom_annotations": null
}
],
"message": null
}