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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: 1-109717418-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=109717418&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "1",
"pos": 109717418,
"ref": "A",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_000851.4",
"consequences": [
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.649A>G",
"hgvs_p": "p.Ser217Gly",
"transcript": "NM_000851.4",
"protein_id": "NP_000842.2",
"transcript_support_level": null,
"aa_start": 217,
"aa_end": null,
"aa_length": 218,
"cds_start": 649,
"cds_end": null,
"cds_length": 657,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000256593.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000851.4"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.649A>G",
"hgvs_p": "p.Ser217Gly",
"transcript": "ENST00000256593.8",
"protein_id": "ENSP00000256593.3",
"transcript_support_level": 1,
"aa_start": 217,
"aa_end": null,
"aa_length": 218,
"cds_start": 649,
"cds_end": null,
"cds_length": 657,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_000851.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000256593.8"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.727A>G",
"hgvs_p": "p.Ser243Gly",
"transcript": "ENST00000878690.1",
"protein_id": "ENSP00000548749.1",
"transcript_support_level": null,
"aa_start": 243,
"aa_end": null,
"aa_length": 244,
"cds_start": 727,
"cds_end": null,
"cds_length": 735,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000878690.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.727A>G",
"hgvs_p": "p.Ser243Gly",
"transcript": "ENST00000966870.1",
"protein_id": "ENSP00000636929.1",
"transcript_support_level": null,
"aa_start": 243,
"aa_end": null,
"aa_length": 244,
"cds_start": 727,
"cds_end": null,
"cds_length": 735,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000966870.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.649A>G",
"hgvs_p": "p.Ser217Gly",
"transcript": "ENST00000369812.6",
"protein_id": "ENSP00000358827.5",
"transcript_support_level": 5,
"aa_start": 217,
"aa_end": null,
"aa_length": 218,
"cds_start": 649,
"cds_end": null,
"cds_length": 657,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000369812.6"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.646A>G",
"hgvs_p": "p.Ser216Gly",
"transcript": "ENST00000966873.1",
"protein_id": "ENSP00000636932.1",
"transcript_support_level": null,
"aa_start": 216,
"aa_end": null,
"aa_length": 217,
"cds_start": 646,
"cds_end": null,
"cds_length": 654,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000966873.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.508A>G",
"hgvs_p": "p.Ser170Gly",
"transcript": "ENST00000966874.1",
"protein_id": "ENSP00000636933.1",
"transcript_support_level": null,
"aa_start": 170,
"aa_end": null,
"aa_length": 171,
"cds_start": 508,
"cds_end": null,
"cds_length": 516,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000966874.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.502A>G",
"hgvs_p": "p.Ser168Gly",
"transcript": "ENST00000966872.1",
"protein_id": "ENSP00000636931.1",
"transcript_support_level": null,
"aa_start": 168,
"aa_end": null,
"aa_length": 169,
"cds_start": 502,
"cds_end": null,
"cds_length": 510,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000966872.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.466A>G",
"hgvs_p": "p.Ser156Gly",
"transcript": "ENST00000878688.1",
"protein_id": "ENSP00000548747.1",
"transcript_support_level": null,
"aa_start": 156,
"aa_end": null,
"aa_length": 157,
"cds_start": 466,
"cds_end": null,
"cds_length": 474,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000878688.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.442A>G",
"hgvs_p": "p.Ser148Gly",
"transcript": "ENST00000878689.1",
"protein_id": "ENSP00000548748.1",
"transcript_support_level": null,
"aa_start": 148,
"aa_end": null,
"aa_length": 149,
"cds_start": 442,
"cds_end": null,
"cds_length": 450,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000878689.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.325A>G",
"hgvs_p": "p.Ser109Gly",
"transcript": "ENST00000966871.1",
"protein_id": "ENSP00000636930.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 110,
"cds_start": 325,
"cds_end": null,
"cds_length": 333,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000966871.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.118A>G",
"hgvs_p": "p.Ser40Gly",
"transcript": "ENST00000878691.1",
"protein_id": "ENSP00000548750.1",
"transcript_support_level": null,
"aa_start": 40,
"aa_end": null,
"aa_length": 41,
"cds_start": 118,
"cds_end": null,
"cds_length": 126,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000878691.1"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.649A>G",
"hgvs_p": "p.Ser217Gly",
"transcript": "XM_005270784.5",
"protein_id": "XP_005270841.1",
"transcript_support_level": null,
"aa_start": 217,
"aa_end": null,
"aa_length": 218,
"cds_start": 649,
"cds_end": null,
"cds_length": 657,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005270784.5"
},
{
"aa_ref": "S",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.337A>G",
"hgvs_p": "p.Ser113Gly",
"transcript": "XM_005270785.5",
"protein_id": "XP_005270842.1",
"transcript_support_level": null,
"aa_start": 113,
"aa_end": null,
"aa_length": 114,
"cds_start": 337,
"cds_end": null,
"cds_length": 345,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005270785.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "c.*75A>G",
"hgvs_p": null,
"transcript": "ENST00000648974.1",
"protein_id": "ENSP00000498086.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 109,
"cds_start": null,
"cds_end": null,
"cds_length": 330,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000648974.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "n.3527A>G",
"hgvs_p": null,
"transcript": "ENST00000369813.5",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000369813.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "n.620A>G",
"hgvs_p": null,
"transcript": "ENST00000483153.1",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000483153.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"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": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "n.3788A>G",
"hgvs_p": null,
"transcript": "ENST00000492718.1",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000492718.1"
},
{
"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": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"hgvs_c": "n.82+5070A>G",
"hgvs_p": null,
"transcript": "ENST00000429410.2",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000429410.2"
}
],
"gene_symbol": "GSTM5",
"gene_hgnc_id": 4637,
"dbsnp": "rs113130058",
"frequency_reference_population": 0.009309634,
"hom_count_reference_population": 90,
"allele_count_reference_population": 15014,
"gnomad_exomes_af": 0.00949228,
"gnomad_genomes_af": 0.00755805,
"gnomad_exomes_ac": 13863,
"gnomad_genomes_ac": 1151,
"gnomad_exomes_homalt": 81,
"gnomad_genomes_homalt": 9,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.0034254491329193115,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.101,
"revel_prediction": "Benign",
"alphamissense_score": 0.076,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.79,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.533,
"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": -16,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BS2",
"acmg_by_gene": [
{
"score": -16,
"benign_score": 16,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_000851.4",
"gene_symbol": "GSTM5",
"hgnc_id": 4637,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.649A>G",
"hgvs_p": "p.Ser217Gly"
}
],
"clinvar_disease": "not provided",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:2",
"phenotype_combined": "not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}