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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: 19-43511515-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=43511515&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "19",
"pos": 43511515,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "ENST00000292147.7",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.427G>A",
"hgvs_p": "p.Val143Ile",
"transcript": "NM_014297.5",
"protein_id": "NP_055112.2",
"transcript_support_level": null,
"aa_start": 143,
"aa_end": null,
"aa_length": 254,
"cds_start": 427,
"cds_end": null,
"cds_length": 765,
"cdna_start": 451,
"cdna_end": null,
"cdna_length": 920,
"mane_select": "ENST00000292147.7",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.427G>A",
"hgvs_p": "p.Val143Ile",
"transcript": "ENST00000292147.7",
"protein_id": "ENSP00000292147.1",
"transcript_support_level": 1,
"aa_start": 143,
"aa_end": null,
"aa_length": 254,
"cds_start": 427,
"cds_end": null,
"cds_length": 765,
"cdna_start": 451,
"cdna_end": null,
"cdna_length": 920,
"mane_select": "NM_014297.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.427G>A",
"hgvs_p": "p.Val143Ile",
"transcript": "ENST00000600651.5",
"protein_id": "ENSP00000469037.1",
"transcript_support_level": 1,
"aa_start": 143,
"aa_end": null,
"aa_length": 260,
"cds_start": 427,
"cds_end": null,
"cds_length": 783,
"cdna_start": 451,
"cdna_end": null,
"cdna_length": 1052,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.394G>A",
"hgvs_p": "p.Val132Ile",
"transcript": "NM_001320867.2",
"protein_id": "NP_001307796.1",
"transcript_support_level": null,
"aa_start": 132,
"aa_end": null,
"aa_length": 243,
"cds_start": 394,
"cds_end": null,
"cds_length": 732,
"cdna_start": 418,
"cdna_end": null,
"cdna_length": 887,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.133G>A",
"hgvs_p": "p.Val45Ile",
"transcript": "NM_001320869.2",
"protein_id": "NP_001307798.1",
"transcript_support_level": null,
"aa_start": 45,
"aa_end": null,
"aa_length": 156,
"cds_start": 133,
"cds_end": null,
"cds_length": 471,
"cdna_start": 157,
"cdna_end": null,
"cdna_length": 626,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.58G>A",
"hgvs_p": "p.Val20Ile",
"transcript": "NM_001320868.2",
"protein_id": "NP_001307797.1",
"transcript_support_level": null,
"aa_start": 20,
"aa_end": null,
"aa_length": 131,
"cds_start": 58,
"cds_end": null,
"cds_length": 396,
"cdna_start": 302,
"cdna_end": null,
"cdna_length": 771,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "c.346G>A",
"hgvs_p": "p.Val116Ile",
"transcript": "XM_005258687.5",
"protein_id": "XP_005258744.1",
"transcript_support_level": null,
"aa_start": 116,
"aa_end": null,
"aa_length": 227,
"cds_start": 346,
"cds_end": null,
"cds_length": 684,
"cdna_start": 611,
"cdna_end": null,
"cdna_length": 1080,
"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": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "n.278G>A",
"hgvs_p": null,
"transcript": "ENST00000594342.5",
"protein_id": "ENSP00000469652.1",
"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": 702,
"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": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "n.278G>A",
"hgvs_p": null,
"transcript": "ENST00000598330.1",
"protein_id": "ENSP00000469219.1",
"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": 915,
"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": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "n.*431G>A",
"hgvs_p": null,
"transcript": "ENST00000602138.1",
"protein_id": "ENSP00000468964.1",
"transcript_support_level": 3,
"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": 648,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"hgvs_c": "n.*431G>A",
"hgvs_p": null,
"transcript": "ENST00000602138.1",
"protein_id": "ENSP00000468964.1",
"transcript_support_level": 3,
"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": 648,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "ETHE1",
"gene_hgnc_id": 23287,
"dbsnp": "rs201846162",
"frequency_reference_population": 0.00005080136,
"hom_count_reference_population": 0,
"allele_count_reference_population": 82,
"gnomad_exomes_af": 0.0000526727,
"gnomad_genomes_af": 0.000032836,
"gnomad_exomes_ac": 77,
"gnomad_genomes_ac": 5,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.14422976970672607,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.491,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.109,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.19,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 3.656,
"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": -1,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM1,BP4_Moderate,BS1_Supporting",
"acmg_by_gene": [
{
"score": -1,
"benign_score": 3,
"pathogenic_score": 2,
"criteria": [
"PM1",
"BP4_Moderate",
"BS1_Supporting"
],
"verdict": "Likely_benign",
"transcript": "ENST00000292147.7",
"gene_symbol": "ETHE1",
"hgnc_id": 23287,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.427G>A",
"hgvs_p": "p.Val143Ile"
}
],
"clinvar_disease": "Ethylmalonic encephalopathy",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "reviewed by expert panel",
"clinvar_submissions_summary": "US:2",
"phenotype_combined": "Ethylmalonic encephalopathy",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}