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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: 22-18126794-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=22&pos=18126794&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "22",
"pos": 18126794,
"ref": "C",
"alt": "T",
"effect": "synonymous_variant",
"transcript": "ENST00000330423.8",
"consequences": [
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.816C>T",
"hgvs_p": "p.Tyr272Tyr",
"transcript": "NM_018943.3",
"protein_id": "NP_061816.1",
"transcript_support_level": null,
"aa_start": 272,
"aa_end": null,
"aa_length": 449,
"cds_start": 816,
"cds_end": null,
"cds_length": 1350,
"cdna_start": 873,
"cdna_end": null,
"cdna_length": 2003,
"mane_select": "ENST00000330423.8",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.816C>T",
"hgvs_p": "p.Tyr272Tyr",
"transcript": "ENST00000330423.8",
"protein_id": "ENSP00000333326.3",
"transcript_support_level": 1,
"aa_start": 272,
"aa_end": null,
"aa_length": 449,
"cds_start": 816,
"cds_end": null,
"cds_length": 1350,
"cdna_start": 873,
"cdna_end": null,
"cdna_length": 2003,
"mane_select": "NM_018943.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.618C>T",
"hgvs_p": "p.Tyr206Tyr",
"transcript": "ENST00000416740.2",
"protein_id": "ENSP00000412646.2",
"transcript_support_level": 1,
"aa_start": 206,
"aa_end": null,
"aa_length": 383,
"cds_start": 618,
"cds_end": null,
"cds_length": 1152,
"cdna_start": 880,
"cdna_end": null,
"cdna_length": 1998,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000288683",
"gene_hgnc_id": null,
"hgvs_c": "n.*706C>T",
"hgvs_p": null,
"transcript": "ENST00000474897.6",
"protein_id": "ENSP00000434235.2",
"transcript_support_level": 5,
"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": 2885,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000288683",
"gene_hgnc_id": null,
"hgvs_c": "n.*706C>T",
"hgvs_p": null,
"transcript": "ENST00000474897.6",
"protein_id": "ENSP00000434235.2",
"transcript_support_level": 5,
"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": 2885,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.816C>T",
"hgvs_p": "p.Tyr272Tyr",
"transcript": "ENST00000680175.1",
"protein_id": "ENSP00000505461.1",
"transcript_support_level": null,
"aa_start": 272,
"aa_end": null,
"aa_length": 426,
"cds_start": 816,
"cds_end": null,
"cds_length": 1281,
"cdna_start": 1377,
"cdna_end": null,
"cdna_length": 3026,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.618C>T",
"hgvs_p": "p.Tyr206Tyr",
"transcript": "NM_001193414.2",
"protein_id": "NP_001180343.1",
"transcript_support_level": null,
"aa_start": 206,
"aa_end": null,
"aa_length": 383,
"cds_start": 618,
"cds_end": null,
"cds_length": 1152,
"cdna_start": 844,
"cdna_end": null,
"cdna_length": 1974,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.618C>T",
"hgvs_p": "p.Tyr206Tyr",
"transcript": "ENST00000316027.10",
"protein_id": "ENSP00000318575.6",
"transcript_support_level": 2,
"aa_start": 206,
"aa_end": null,
"aa_length": 383,
"cds_start": 618,
"cds_end": null,
"cds_length": 1152,
"cdna_start": 966,
"cdna_end": null,
"cdna_length": 1518,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.618C>T",
"hgvs_p": "p.Tyr206Tyr",
"transcript": "ENST00000679963.1",
"protein_id": "ENSP00000505896.1",
"transcript_support_level": null,
"aa_start": 206,
"aa_end": null,
"aa_length": 314,
"cds_start": 618,
"cds_end": null,
"cds_length": 945,
"cdna_start": 1290,
"cdna_end": null,
"cdna_length": 2558,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Y",
"aa_alt": "Y",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "c.87C>T",
"hgvs_p": "p.Tyr29Tyr",
"transcript": "ENST00000608634.1",
"protein_id": "ENSP00000477306.1",
"transcript_support_level": 2,
"aa_start": 29,
"aa_end": null,
"aa_length": 274,
"cds_start": 87,
"cds_end": null,
"cds_length": 825,
"cdna_start": 88,
"cdna_end": null,
"cdna_length": 1391,
"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": 1,
"exon_rank_end": null,
"exon_count": 1,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ENSG00000280007",
"gene_hgnc_id": null,
"hgvs_c": "n.4361G>A",
"hgvs_p": null,
"transcript": "ENST00000623543.1",
"protein_id": null,
"transcript_support_level": 6,
"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": 20396,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"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": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"hgvs_c": "n.1185C>T",
"hgvs_p": null,
"transcript": "ENST00000679481.1",
"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": 1737,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "TUBA8",
"gene_hgnc_id": 12410,
"dbsnp": "rs2234332",
"frequency_reference_population": 0.0028171544,
"hom_count_reference_population": 96,
"allele_count_reference_population": 4547,
"gnomad_exomes_af": 0.00163081,
"gnomad_genomes_af": 0.0142125,
"gnomad_exomes_ac": 2384,
"gnomad_genomes_ac": 2163,
"gnomad_exomes_homalt": 57,
"gnomad_genomes_homalt": 39,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.6000000238418579,
"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": -0.6,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -1.794,
"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": -21,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BP7,BA1",
"acmg_by_gene": [
{
"score": -21,
"benign_score": 21,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BP7",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000330423.8",
"gene_symbol": "TUBA8",
"hgnc_id": 12410,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "Unknown,AR",
"hgvs_c": "c.816C>T",
"hgvs_p": "p.Tyr272Tyr"
},
{
"score": -20,
"benign_score": 20,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000474897.6",
"gene_symbol": "ENSG00000288683",
"hgnc_id": null,
"effects": [
"non_coding_transcript_exon_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.*706C>T",
"hgvs_p": null
},
{
"score": -20,
"benign_score": 20,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000623543.1",
"gene_symbol": "ENSG00000280007",
"hgnc_id": null,
"effects": [
"non_coding_transcript_exon_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.4361G>A",
"hgvs_p": null
}
],
"clinvar_disease": "not provided,not specified",
"clinvar_classification": "Benign/Likely benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "LB:2 B:3",
"phenotype_combined": "not specified|not provided",
"pathogenicity_classification_combined": "Benign/Likely benign",
"custom_annotations": null
}
],
"message": null
}