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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: 5-95900755-C-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=5&pos=95900755&ref=C&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "5",
"pos": 95900755,
"ref": "C",
"alt": "G",
"effect": "missense_variant",
"transcript": "ENST00000237853.9",
"consequences": [
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.892G>C",
"hgvs_p": "p.Ala298Pro",
"transcript": "NM_012081.6",
"protein_id": "NP_036213.2",
"transcript_support_level": null,
"aa_start": 298,
"aa_end": null,
"aa_length": 640,
"cds_start": 892,
"cds_end": null,
"cds_length": 1923,
"cdna_start": 1022,
"cdna_end": null,
"cdna_length": 5826,
"mane_select": "ENST00000237853.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.892G>C",
"hgvs_p": "p.Ala298Pro",
"transcript": "ENST00000237853.9",
"protein_id": "ENSP00000237853.4",
"transcript_support_level": 1,
"aa_start": 298,
"aa_end": null,
"aa_length": 640,
"cds_start": 892,
"cds_end": null,
"cds_length": 1923,
"cdna_start": 1022,
"cdna_end": null,
"cdna_length": 5826,
"mane_select": "NM_012081.6",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.346G>C",
"hgvs_p": "p.Ala116Pro",
"transcript": "ENST00000513343.1",
"protein_id": "ENSP00000423915.1",
"transcript_support_level": 3,
"aa_start": 116,
"aa_end": null,
"aa_length": 150,
"cds_start": 346,
"cds_end": null,
"cds_length": 455,
"cdna_start": 473,
"cdna_end": null,
"cdna_length": 582,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.892G>C",
"hgvs_p": "p.Ala298Pro",
"transcript": "XM_017009239.2",
"protein_id": "XP_016864728.1",
"transcript_support_level": null,
"aa_start": 298,
"aa_end": null,
"aa_length": 589,
"cds_start": 892,
"cds_end": null,
"cds_length": 1770,
"cdna_start": 1022,
"cdna_end": null,
"cdna_length": 3161,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.727G>C",
"hgvs_p": "p.Ala243Pro",
"transcript": "XM_047416959.1",
"protein_id": "XP_047272915.1",
"transcript_support_level": null,
"aa_start": 243,
"aa_end": null,
"aa_length": 585,
"cds_start": 727,
"cds_end": null,
"cds_length": 1758,
"cdna_start": 819,
"cdna_end": null,
"cdna_length": 5623,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.496G>C",
"hgvs_p": "p.Ala166Pro",
"transcript": "XM_017009240.3",
"protein_id": "XP_016864729.1",
"transcript_support_level": null,
"aa_start": 166,
"aa_end": null,
"aa_length": 508,
"cds_start": 496,
"cds_end": null,
"cds_length": 1527,
"cdna_start": 795,
"cdna_end": null,
"cdna_length": 5599,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "c.496G>C",
"hgvs_p": "p.Ala166Pro",
"transcript": "XM_047416960.1",
"protein_id": "XP_047272916.1",
"transcript_support_level": null,
"aa_start": 166,
"aa_end": null,
"aa_length": 508,
"cds_start": 496,
"cds_end": null,
"cds_length": 1527,
"cdna_start": 598,
"cdna_end": null,
"cdna_length": 5402,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"hgvs_c": "n.203G>C",
"hgvs_p": null,
"transcript": "ENST00000505584.1",
"protein_id": null,
"transcript_support_level": 2,
"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": 730,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 6,
"intron_rank": 4,
"intron_rank_end": null,
"gene_symbol": "ENSG00000250362",
"gene_hgnc_id": null,
"hgvs_c": "n.739+23935C>G",
"hgvs_p": null,
"transcript": "ENST00000718070.1",
"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": 1270,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 4,
"intron_rank_end": null,
"gene_symbol": "ENSG00000250362",
"gene_hgnc_id": null,
"hgvs_c": "n.738-6558C>G",
"hgvs_p": null,
"transcript": "ENST00000718072.1",
"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": 1444,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "ELL2",
"gene_hgnc_id": 17064,
"dbsnp": "rs3815768",
"frequency_reference_population": null,
"hom_count_reference_population": 0,
"allele_count_reference_population": 0,
"gnomad_exomes_af": null,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.16576191782951355,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.052,
"revel_prediction": "Benign",
"alphamissense_score": 0.0869,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.44,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.165,
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000237853.9",
"gene_symbol": "ELL2",
"hgnc_id": 17064,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.892G>C",
"hgvs_p": "p.Ala298Pro"
},
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000718070.1",
"gene_symbol": "ENSG00000250362",
"hgnc_id": null,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.739+23935C>G",
"hgvs_p": null
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}