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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: 18-2925295-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=18&pos=2925295&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "18",
"pos": 2925295,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000677752.1",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "NM_001375808.2",
"protein_id": "NP_001362737.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 1934,
"cdna_end": null,
"cdna_length": 6052,
"mane_select": "ENST00000677752.1",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "ENST00000677752.1",
"protein_id": "ENSP00000504857.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 1934,
"cdna_end": null,
"cdna_length": 6052,
"mane_select": "NM_001375808.2",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "ENST00000261596.9",
"protein_id": "ENSP00000261596.4",
"transcript_support_level": 1,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 2176,
"cdna_end": null,
"cdna_length": 6299,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "NM_001375809.1",
"protein_id": "NP_001362738.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 1984,
"cdna_end": null,
"cdna_length": 6102,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "NM_014646.2",
"protein_id": "NP_055461.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 2106,
"cdna_end": null,
"cdna_length": 6229,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "ENST00000697040.1",
"protein_id": "ENSP00000513062.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 1982,
"cdna_end": null,
"cdna_length": 6092,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "ENST00000697039.1",
"protein_id": "ENSP00000513061.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 853,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2562,
"cdna_start": 1934,
"cdna_end": null,
"cdna_length": 2752,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "ENST00000697042.1",
"protein_id": "ENSP00000513064.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 647,
"cds_start": 1867,
"cds_end": null,
"cds_length": 1944,
"cdna_start": 1962,
"cdna_end": null,
"cdna_length": 2039,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.562C>T",
"hgvs_p": "p.Pro188Ser",
"transcript": "ENST00000697041.1",
"protein_id": "ENSP00000513063.1",
"transcript_support_level": null,
"aa_start": 188,
"aa_end": null,
"aa_length": 414,
"cds_start": 562,
"cds_end": null,
"cds_length": 1245,
"cdna_start": 562,
"cdna_end": null,
"cdna_length": 4910,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1978C>T",
"hgvs_p": "p.Pro660Ser",
"transcript": "XM_005258177.5",
"protein_id": "XP_005258234.1",
"transcript_support_level": null,
"aa_start": 660,
"aa_end": null,
"aa_length": 933,
"cds_start": 1978,
"cds_end": null,
"cds_length": 2802,
"cdna_start": 2056,
"cdna_end": null,
"cdna_length": 6179,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 16,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1879C>T",
"hgvs_p": "p.Pro627Ser",
"transcript": "XM_047437958.1",
"protein_id": "XP_047293914.1",
"transcript_support_level": null,
"aa_start": 627,
"aa_end": null,
"aa_length": 900,
"cds_start": 1879,
"cds_end": null,
"cds_length": 2703,
"cdna_start": 2366,
"cdna_end": null,
"cdna_length": 6489,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "XM_017026099.2",
"protein_id": "XP_016881588.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 1970,
"cdna_end": null,
"cdna_length": 6093,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser",
"transcript": "XM_047437959.1",
"protein_id": "XP_047293915.1",
"transcript_support_level": null,
"aa_start": 623,
"aa_end": null,
"aa_length": 896,
"cds_start": 1867,
"cds_end": null,
"cds_length": 2691,
"cdna_start": 5824,
"cdna_end": null,
"cdna_length": 9947,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "LPIN2",
"gene_hgnc_id": 14450,
"dbsnp": "rs143090653",
"frequency_reference_population": 0.0015841057,
"hom_count_reference_population": 40,
"allele_count_reference_population": 2557,
"gnomad_exomes_af": 0.00090432,
"gnomad_genomes_af": 0.00810963,
"gnomad_exomes_ac": 1322,
"gnomad_genomes_ac": 1235,
"gnomad_exomes_homalt": 20,
"gnomad_genomes_homalt": 20,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.0029992759227752686,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.07000000029802322,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.146,
"revel_prediction": "Benign",
"alphamissense_score": 0.0742,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.57,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 2.53,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.07,
"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": -20,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BS1,BS2",
"acmg_by_gene": [
{
"score": -20,
"benign_score": 20,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BS1",
"BS2"
],
"verdict": "Benign",
"transcript": "ENST00000677752.1",
"gene_symbol": "LPIN2",
"hgnc_id": 14450,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1867C>T",
"hgvs_p": "p.Pro623Ser"
}
],
"clinvar_disease": "Autoinflammatory syndrome,Majeed syndrome,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:5",
"phenotype_combined": "not specified|Majeed syndrome|Autoinflammatory syndrome|not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}