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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: 13-110211627-CAAAAT-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=13&pos=110211627&ref=CAAAAT&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "13",
"pos": 110211627,
"ref": "CAAAAT",
"alt": "C",
"effect": "intron_variant",
"transcript": "ENST00000375820.10",
"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": 52,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "NM_001845.6",
"protein_id": "NP_001836.3",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1669,
"cds_start": -4,
"cds_end": null,
"cds_length": 5010,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6540,
"mane_select": "ENST00000375820.10",
"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": 52,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000375820.10",
"protein_id": "ENSP00000364979.4",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 1669,
"cds_start": -4,
"cds_end": null,
"cds_length": 5010,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6540,
"mane_select": "NM_001845.6",
"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": 25,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000543140.6",
"protein_id": "ENSP00000443348.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 519,
"cds_start": -4,
"cds_end": null,
"cds_length": 1560,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2549,
"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": 52,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000650424.2",
"protein_id": "ENSP00000497477.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1667,
"cds_start": -4,
"cds_end": null,
"cds_length": 5004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6386,
"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": 52,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.276+15_276+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000615732.3",
"protein_id": "ENSP00000478222.3",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 1605,
"cds_start": -4,
"cds_end": null,
"cds_length": 4818,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6742,
"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": 51,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000714330.1",
"protein_id": "ENSP00000519606.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 1554,
"cds_start": -4,
"cds_end": null,
"cds_length": 4665,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6240,
"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": 25,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "NM_001303110.2",
"protein_id": "NP_001290039.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 519,
"cds_start": -4,
"cds_end": null,
"cds_length": 1560,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2575,
"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": 21,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000647797.2",
"protein_id": "ENSP00000497756.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 454,
"cds_start": -4,
"cds_end": null,
"cds_length": 1365,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2345,
"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": 10,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000648966.2",
"protein_id": "ENSP00000497533.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 217,
"cds_start": -4,
"cds_end": null,
"cds_length": 654,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 836,
"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": 9,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000649484.2",
"protein_id": "ENSP00000497355.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 188,
"cds_start": -4,
"cds_end": null,
"cds_length": 567,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 922,
"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": 12,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "n.101+15_101+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000647632.1",
"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": 1294,
"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": 7,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "n.1036+15_1036+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000648170.1",
"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": 1372,
"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": 31,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "n.598+15_598+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000649738.1",
"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": 2644,
"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": 51,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "n.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000714329.1",
"protein_id": "ENSP00000519605.1",
"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": 6371,
"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": 51,
"intron_rank": 8,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "n.468+15_468+19delATTTT",
"hgvs_p": null,
"transcript": "ENST00000714331.1",
"protein_id": "ENSP00000519607.1",
"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": 6423,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"hgvs_c": "n.*17_*21delATTTT",
"hgvs_p": null,
"transcript": "ENST00000650138.1",
"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": 350,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "COL4A1",
"gene_hgnc_id": 2202,
"dbsnp": "rs3832900",
"frequency_reference_population": 0.024021186,
"hom_count_reference_population": 1293,
"allele_count_reference_population": 38667,
"gnomad_exomes_af": 0.021606,
"gnomad_genomes_af": 0.0471593,
"gnomad_exomes_ac": 31492,
"gnomad_genomes_ac": 7175,
"gnomad_exomes_homalt": 987,
"gnomad_genomes_homalt": 306,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": null,
"computational_prediction_selected": null,
"computational_source_selected": null,
"splice_score_selected": null,
"splice_prediction_selected": null,
"splice_source_selected": null,
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": null,
"bayesdelnoaf_prediction": null,
"phylop100way_score": 2.063,
"phylop100way_prediction": "Benign",
"spliceai_max_score": null,
"spliceai_max_prediction": null,
"dbscsnv_ada_score": null,
"dbscsnv_ada_prediction": null,
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": -16,
"acmg_classification": "Benign",
"acmg_criteria": "BP6_Very_Strong,BA1",
"acmg_by_gene": [
{
"score": -16,
"benign_score": 16,
"pathogenic_score": 0,
"criteria": [
"BP6_Very_Strong",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000375820.10",
"gene_symbol": "COL4A1",
"hgnc_id": 2202,
"effects": [
"intron_variant"
],
"inheritance_mode": "AD,AR",
"hgvs_c": "c.468+15_468+19delATTTT",
"hgvs_p": null
}
],
"clinvar_disease": "Autosomal dominant familial hematuria-retinal arteriolar tortuosity-contractures syndrome,Brain small vessel disease 1 with or without ocular anomalies,Porencephalic cyst,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:7",
"phenotype_combined": "not specified|Autosomal dominant familial hematuria-retinal arteriolar tortuosity-contractures syndrome|Porencephalic cyst|not provided|Brain small vessel disease 1 with or without ocular anomalies",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}