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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: 16-11758498-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=11758498&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "16",
"pos": 11758498,
"ref": "A",
"alt": "G",
"effect": "synonymous_variant",
"transcript": "ENST00000355758.9",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val",
"transcript": "NM_014153.4",
"protein_id": "NP_054872.2",
"transcript_support_level": null,
"aa_start": 787,
"aa_end": null,
"aa_length": 971,
"cds_start": 2361,
"cds_end": null,
"cds_length": 2916,
"cdna_start": 2530,
"cdna_end": null,
"cdna_length": 3805,
"mane_select": "ENST00000355758.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val",
"transcript": "ENST00000355758.9",
"protein_id": "ENSP00000347999.4",
"transcript_support_level": 1,
"aa_start": 787,
"aa_end": null,
"aa_length": 971,
"cds_start": 2361,
"cds_end": null,
"cds_length": 2916,
"cdna_start": 2530,
"cdna_end": null,
"cdna_length": 3805,
"mane_select": "NM_014153.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 19,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val",
"transcript": "ENST00000396516.6",
"protein_id": "ENSP00000379773.2",
"transcript_support_level": 1,
"aa_start": 787,
"aa_end": null,
"aa_length": 971,
"cds_start": 2361,
"cds_end": null,
"cds_length": 2916,
"cdna_start": 2559,
"cdna_end": null,
"cdna_length": 3845,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.-52T>C",
"hgvs_p": null,
"transcript": "ENST00000575984.1",
"protein_id": "ENSP00000459477.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 167,
"cds_start": -4,
"cds_end": null,
"cds_length": 504,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2632,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "L",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 19,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2255T>C",
"hgvs_p": "p.Leu752Ser",
"transcript": "XM_047433997.1",
"protein_id": "XP_047289953.1",
"transcript_support_level": null,
"aa_start": 752,
"aa_end": null,
"aa_length": 769,
"cds_start": 2255,
"cds_end": null,
"cds_length": 2310,
"cdna_start": 2424,
"cdna_end": null,
"cdna_length": 2491,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 18,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2091T>C",
"hgvs_p": "p.Val697Val",
"transcript": "ENST00000571198.5",
"protein_id": "ENSP00000459747.1",
"transcript_support_level": 2,
"aa_start": 697,
"aa_end": null,
"aa_length": 732,
"cds_start": 2091,
"cds_end": null,
"cds_length": 2200,
"cdna_start": 2234,
"cdna_end": null,
"cdna_length": 2343,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val",
"transcript": "XM_006720877.3",
"protein_id": "XP_006720940.1",
"transcript_support_level": null,
"aa_start": 787,
"aa_end": null,
"aa_length": 971,
"cds_start": 2361,
"cds_end": null,
"cds_length": 2916,
"cdna_start": 3167,
"cdna_end": null,
"cdna_length": 4442,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val",
"transcript": "XM_011522463.3",
"protein_id": "XP_011520765.1",
"transcript_support_level": null,
"aa_start": 787,
"aa_end": null,
"aa_length": 971,
"cds_start": 2361,
"cds_end": null,
"cds_length": 2916,
"cdna_start": 2727,
"cdna_end": null,
"cdna_length": 4002,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val",
"transcript": "XM_047433996.1",
"protein_id": "XP_047289952.1",
"transcript_support_level": null,
"aa_start": 787,
"aa_end": null,
"aa_length": 971,
"cds_start": 2361,
"cds_end": null,
"cds_length": 2916,
"cdna_start": 2705,
"cdna_end": null,
"cdna_length": 3980,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 18,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.2058T>C",
"hgvs_p": "p.Val686Val",
"transcript": "XM_017023174.2",
"protein_id": "XP_016878663.1",
"transcript_support_level": null,
"aa_start": 686,
"aa_end": null,
"aa_length": 870,
"cds_start": 2058,
"cds_end": null,
"cds_length": 2613,
"cdna_start": 2304,
"cdna_end": null,
"cdna_length": 3579,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.1644T>C",
"hgvs_p": "p.Val548Val",
"transcript": "XM_011522464.3",
"protein_id": "XP_011520766.1",
"transcript_support_level": null,
"aa_start": 548,
"aa_end": null,
"aa_length": 732,
"cds_start": 1644,
"cds_end": null,
"cds_length": 2199,
"cdna_start": 2323,
"cdna_end": null,
"cdna_length": 3598,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "c.1188T>C",
"hgvs_p": "p.Val396Val",
"transcript": "XM_047433998.1",
"protein_id": "XP_047289954.1",
"transcript_support_level": null,
"aa_start": 396,
"aa_end": null,
"aa_length": 580,
"cds_start": 1188,
"cds_end": null,
"cds_length": 1743,
"cdna_start": 1288,
"cdna_end": null,
"cdna_length": 2563,
"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": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "n.299T>C",
"hgvs_p": null,
"transcript": "ENST00000570862.1",
"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": 415,
"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": "ZC3H7A",
"gene_hgnc_id": 30959,
"hgvs_c": "n.652T>C",
"hgvs_p": null,
"transcript": "ENST00000571405.5",
"protein_id": "ENSP00000459811.1",
"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": 1930,
"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": 3,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TXNDC11-AS1",
"gene_hgnc_id": 56375,
"hgvs_c": "n.111-9140A>G",
"hgvs_p": null,
"transcript": "ENST00000789294.1",
"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": 392,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "ZC3H7A",
"gene_hgnc_id": 30959,
"dbsnp": "rs8743",
"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": -0.5299999713897705,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.53,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.745,
"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": -3,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong,BP7",
"acmg_by_gene": [
{
"score": -3,
"benign_score": 5,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong",
"BP7"
],
"verdict": "Likely_benign",
"transcript": "ENST00000355758.9",
"gene_symbol": "ZC3H7A",
"hgnc_id": 30959,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "Unknown",
"hgvs_c": "c.2361T>C",
"hgvs_p": "p.Val787Val"
},
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000789294.1",
"gene_symbol": "TXNDC11-AS1",
"hgnc_id": 56375,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.111-9140A>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
}