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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: 11-61876887-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=61876887&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "11",
"pos": 61876887,
"ref": "A",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_021727.5",
"consequences": [
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.962T>C",
"hgvs_p": "p.Leu321Pro",
"transcript": "NM_021727.5",
"protein_id": "NP_068373.1",
"transcript_support_level": null,
"aa_start": 321,
"aa_end": null,
"aa_length": 445,
"cds_start": 962,
"cds_end": null,
"cds_length": 1338,
"cdna_start": 1126,
"cdna_end": null,
"cdna_length": 1790,
"mane_select": "ENST00000278829.7",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.962T>C",
"hgvs_p": "p.Leu321Pro",
"transcript": "ENST00000278829.7",
"protein_id": "ENSP00000278829.2",
"transcript_support_level": 1,
"aa_start": 321,
"aa_end": null,
"aa_length": 445,
"cds_start": 962,
"cds_end": null,
"cds_length": 1338,
"cdna_start": 1126,
"cdna_end": null,
"cdna_length": 1790,
"mane_select": "NM_021727.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.878T>C",
"hgvs_p": "p.Leu293Pro",
"transcript": "ENST00000525588.5",
"protein_id": "ENSP00000432206.1",
"transcript_support_level": 5,
"aa_start": 293,
"aa_end": null,
"aa_length": 417,
"cds_start": 878,
"cds_end": null,
"cds_length": 1254,
"cdna_start": 878,
"cdna_end": null,
"cdna_length": 1254,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.590T>C",
"hgvs_p": "p.Leu197Pro",
"transcript": "ENST00000527697.5",
"protein_id": "ENSP00000431533.1",
"transcript_support_level": 5,
"aa_start": 197,
"aa_end": null,
"aa_length": 330,
"cds_start": 590,
"cds_end": null,
"cds_length": 993,
"cdna_start": 942,
"cdna_end": null,
"cdna_length": 1640,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.284T>C",
"hgvs_p": "p.Leu95Pro",
"transcript": "ENST00000527379.5",
"protein_id": "ENSP00000435597.1",
"transcript_support_level": 3,
"aa_start": 95,
"aa_end": null,
"aa_length": 228,
"cds_start": 284,
"cds_end": null,
"cds_length": 687,
"cdna_start": 286,
"cdna_end": null,
"cdna_length": 768,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.590T>C",
"hgvs_p": "p.Leu197Pro",
"transcript": "ENST00000531956.5",
"protein_id": "ENSP00000436890.1",
"transcript_support_level": 5,
"aa_start": 197,
"aa_end": null,
"aa_length": 198,
"cds_start": 590,
"cds_end": null,
"cds_length": 599,
"cdna_start": 832,
"cdna_end": null,
"cdna_length": 841,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.1100T>C",
"hgvs_p": "p.Leu367Pro",
"transcript": "XM_017017723.1",
"protein_id": "XP_016873212.1",
"transcript_support_level": null,
"aa_start": 367,
"aa_end": null,
"aa_length": 500,
"cds_start": 1100,
"cds_end": null,
"cds_length": 1503,
"cdna_start": 1115,
"cdna_end": null,
"cdna_length": 1806,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.1100T>C",
"hgvs_p": "p.Leu367Pro",
"transcript": "XM_017017724.1",
"protein_id": "XP_016873213.1",
"transcript_support_level": null,
"aa_start": 367,
"aa_end": null,
"aa_length": 491,
"cds_start": 1100,
"cds_end": null,
"cds_length": 1476,
"cdna_start": 1115,
"cdna_end": null,
"cdna_length": 1779,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.962T>C",
"hgvs_p": "p.Leu321Pro",
"transcript": "XM_011545023.2",
"protein_id": "XP_011543325.1",
"transcript_support_level": null,
"aa_start": 321,
"aa_end": null,
"aa_length": 454,
"cds_start": 962,
"cds_end": null,
"cds_length": 1365,
"cdna_start": 1126,
"cdna_end": null,
"cdna_length": 1817,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.590T>C",
"hgvs_p": "p.Leu197Pro",
"transcript": "XM_047426936.1",
"protein_id": "XP_047282892.1",
"transcript_support_level": null,
"aa_start": 197,
"aa_end": null,
"aa_length": 330,
"cds_start": 590,
"cds_end": null,
"cds_length": 993,
"cdna_start": 768,
"cdna_end": null,
"cdna_length": 1459,
"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": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "n.1300T>C",
"hgvs_p": null,
"transcript": "ENST00000529404.5",
"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": 2379,
"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": 5,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "n.4238T>C",
"hgvs_p": null,
"transcript": "ENST00000533676.5",
"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": 5314,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.-17T>C",
"hgvs_p": null,
"transcript": "ENST00000525094.5",
"protein_id": "ENSP00000432012.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 115,
"cds_start": -4,
"cds_end": null,
"cds_length": 348,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 403,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"hgvs_c": "c.*25T>C",
"hgvs_p": null,
"transcript": "ENST00000534223.5",
"protein_id": "ENSP00000434551.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 187,
"cds_start": -4,
"cds_end": null,
"cds_length": 565,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 800,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "FADS3",
"gene_hgnc_id": 3576,
"dbsnp": null,
"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": 0.9254502058029175,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.715,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.5132,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.31,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 6.012,
"phylop100way_prediction": "Uncertain_significance",
"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": 4,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,PP3_Moderate",
"acmg_by_gene": [
{
"score": 4,
"benign_score": 0,
"pathogenic_score": 4,
"criteria": [
"PM2",
"PP3_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_021727.5",
"gene_symbol": "FADS3",
"hgnc_id": 3576,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.962T>C",
"hgvs_p": "p.Leu321Pro"
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}