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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-108159457-C-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=108159457&ref=C&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 108159457,
"ref": "C",
"alt": "A",
"effect": "splice_region_variant,intron_variant",
"transcript": "NM_001287758.2",
"consequences": [
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": 44,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4812+5G>T",
"hgvs_p": null,
"transcript": "NM_033641.4",
"protein_id": "NP_378667.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1690,
"cds_start": null,
"cds_end": null,
"cds_length": 5073,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000334504.12",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_033641.4"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": 44,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4812+5G>T",
"hgvs_p": null,
"transcript": "ENST00000334504.12",
"protein_id": "ENSP00000334733.7",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 1690,
"cds_start": null,
"cds_end": null,
"cds_length": 5073,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_033641.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000334504.12"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": 44,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4815+5G>T",
"hgvs_p": null,
"transcript": "ENST00000372216.8",
"protein_id": "ENSP00000361290.4",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 1691,
"cds_start": null,
"cds_end": null,
"cds_length": 5076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000372216.8"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 43,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4740+5G>T",
"hgvs_p": null,
"transcript": "ENST00000621266.4",
"protein_id": "ENSP00000482970.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 1666,
"cds_start": null,
"cds_end": null,
"cds_length": 5001,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000621266.4"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": 42,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4641+5G>T",
"hgvs_p": null,
"transcript": "ENST00000538570.5",
"protein_id": "ENSP00000445236.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 1633,
"cds_start": null,
"cds_end": null,
"cds_length": 4902,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000538570.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 46,
"intron_rank": 45,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4863+5G>T",
"hgvs_p": null,
"transcript": "NM_001287758.2",
"protein_id": "NP_001274687.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1707,
"cds_start": null,
"cds_end": null,
"cds_length": 5124,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001287758.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 46,
"intron_rank": 45,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4863+5G>T",
"hgvs_p": null,
"transcript": "ENST00000394872.6",
"protein_id": "ENSP00000378340.3",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 1707,
"cds_start": null,
"cds_end": null,
"cds_length": 5124,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000394872.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": 44,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4815+5G>T",
"hgvs_p": null,
"transcript": "NM_001847.4",
"protein_id": "NP_001838.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1691,
"cds_start": null,
"cds_end": null,
"cds_length": 5076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001847.4"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 43,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4770+5G>T",
"hgvs_p": null,
"transcript": "ENST00000962005.1",
"protein_id": "ENSP00000632064.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1676,
"cds_start": null,
"cds_end": null,
"cds_length": 5031,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000962005.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 43,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4740+5G>T",
"hgvs_p": null,
"transcript": "NM_001287759.2",
"protein_id": "NP_001274688.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1666,
"cds_start": null,
"cds_end": null,
"cds_length": 5001,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001287759.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 43,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4713+5G>T",
"hgvs_p": null,
"transcript": "ENST00000913236.1",
"protein_id": "ENSP00000583295.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1657,
"cds_start": null,
"cds_end": null,
"cds_length": 4974,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913236.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": 42,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4641+5G>T",
"hgvs_p": null,
"transcript": "NM_001287760.2",
"protein_id": "NP_001274689.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1633,
"cds_start": null,
"cds_end": null,
"cds_length": 4902,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001287760.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": 42,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4635+5G>T",
"hgvs_p": null,
"transcript": "ENST00000913235.1",
"protein_id": "ENSP00000583294.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1631,
"cds_start": null,
"cds_end": null,
"cds_length": 4896,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913235.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": 42,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4587+5G>T",
"hgvs_p": null,
"transcript": "ENST00000913234.1",
"protein_id": "ENSP00000583293.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1615,
"cds_start": null,
"cds_end": null,
"cds_length": 4848,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913234.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 46,
"intron_rank": 45,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4866+5G>T",
"hgvs_p": null,
"transcript": "XM_006724617.4",
"protein_id": "XP_006724680.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1708,
"cds_start": null,
"cds_end": null,
"cds_length": 5127,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_006724617.4"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": 44,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4794+5G>T",
"hgvs_p": null,
"transcript": "XM_011530852.3",
"protein_id": "XP_011529154.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1684,
"cds_start": null,
"cds_end": null,
"cds_length": 5055,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011530852.3"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 43,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4782+5G>T",
"hgvs_p": null,
"transcript": "XM_011530853.4",
"protein_id": "XP_011529155.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1680,
"cds_start": null,
"cds_end": null,
"cds_length": 5043,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011530853.4"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"splice_region_variant",
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": 43,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.4743+5G>T",
"hgvs_p": null,
"transcript": "XM_047441813.1",
"protein_id": "XP_047297769.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1667,
"cds_start": null,
"cds_end": null,
"cds_length": 5004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047441813.1"
}
],
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"dbsnp": "rs2033844355",
"frequency_reference_population": 9.108356e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 9.10836e-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": -0.25999999046325684,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.8240000009536743,
"splice_prediction_selected": "Pathogenic",
"splice_source_selected": "dbscSNV1_RF",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.26,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.512,
"phylop100way_prediction": "Uncertain_significance",
"spliceai_max_score": 0.42,
"spliceai_max_prediction": "Uncertain_significance",
"dbscsnv_ada_score": 0.997226766464165,
"dbscsnv_ada_prediction": "Pathogenic",
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": 3,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,PP3",
"acmg_by_gene": [
{
"score": 3,
"benign_score": 0,
"pathogenic_score": 3,
"criteria": [
"PM2",
"PP3"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001287758.2",
"gene_symbol": "COL4A6",
"hgnc_id": 2208,
"effects": [
"splice_region_variant",
"intron_variant"
],
"inheritance_mode": "XL",
"hgvs_c": "c.4863+5G>T",
"hgvs_p": null
}
],
"clinvar_disease": "not provided",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not provided",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}