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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: 2-173366304-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=173366304&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 173366304,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "ENST00000306721.8",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.1057C>T",
"hgvs_p": "p.Arg353Cys",
"transcript": "NM_031942.5",
"protein_id": "NP_114148.3",
"transcript_support_level": null,
"aa_start": 353,
"aa_end": null,
"aa_length": 450,
"cds_start": 1057,
"cds_end": null,
"cds_length": 1353,
"cdna_start": 1149,
"cdna_end": null,
"cdna_length": 2778,
"mane_select": "ENST00000306721.8",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.1057C>T",
"hgvs_p": "p.Arg353Cys",
"transcript": "ENST00000306721.8",
"protein_id": "ENSP00000306968.3",
"transcript_support_level": 2,
"aa_start": 353,
"aa_end": null,
"aa_length": 450,
"cds_start": 1057,
"cds_end": null,
"cds_length": 1353,
"cdna_start": 1149,
"cdna_end": null,
"cdna_length": 2778,
"mane_select": "NM_031942.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.820C>T",
"hgvs_p": "p.Arg274Cys",
"transcript": "ENST00000347703.7",
"protein_id": "ENSP00000272789.4",
"transcript_support_level": 1,
"aa_start": 274,
"aa_end": null,
"aa_length": 371,
"cds_start": 820,
"cds_end": null,
"cds_length": 1116,
"cdna_start": 964,
"cdna_end": null,
"cdna_length": 2500,
"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": 7,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.1768+712C>T",
"hgvs_p": null,
"transcript": "ENST00000467411.5",
"protein_id": null,
"transcript_support_level": 1,
"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": 3176,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.1054C>T",
"hgvs_p": "p.Arg352Cys",
"transcript": "ENST00000695912.1",
"protein_id": "ENSP00000512263.1",
"transcript_support_level": null,
"aa_start": 352,
"aa_end": null,
"aa_length": 449,
"cds_start": 1054,
"cds_end": null,
"cds_length": 1350,
"cdna_start": 1178,
"cdna_end": null,
"cdna_length": 2735,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.925C>T",
"hgvs_p": "p.Arg309Cys",
"transcript": "ENST00000410101.7",
"protein_id": "ENSP00000386656.3",
"transcript_support_level": 2,
"aa_start": 309,
"aa_end": null,
"aa_length": 406,
"cds_start": 925,
"cds_end": null,
"cds_length": 1221,
"cdna_start": 1017,
"cdna_end": null,
"cdna_length": 1369,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.820C>T",
"hgvs_p": "p.Arg274Cys",
"transcript": "NM_145810.3",
"protein_id": "NP_665809.1",
"transcript_support_level": null,
"aa_start": 274,
"aa_end": null,
"aa_length": 371,
"cds_start": 820,
"cds_end": null,
"cds_length": 1116,
"cdna_start": 912,
"cdna_end": null,
"cdna_length": 2541,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.817C>T",
"hgvs_p": "p.Arg273Cys",
"transcript": "ENST00000695914.1",
"protein_id": "ENSP00000512265.1",
"transcript_support_level": null,
"aa_start": 273,
"aa_end": null,
"aa_length": 370,
"cds_start": 817,
"cds_end": null,
"cds_length": 1113,
"cdna_start": 909,
"cdna_end": null,
"cdna_length": 1261,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.694C>T",
"hgvs_p": "p.Arg232Cys",
"transcript": "ENST00000410019.3",
"protein_id": "ENSP00000386833.3",
"transcript_support_level": 2,
"aa_start": 232,
"aa_end": null,
"aa_length": 329,
"cds_start": 694,
"cds_end": null,
"cds_length": 990,
"cdna_start": 786,
"cdna_end": null,
"cdna_length": 1488,
"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": 6,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.1811C>T",
"hgvs_p": null,
"transcript": "ENST00000496441.5",
"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": 2943,
"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": 6,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.*487C>T",
"hgvs_p": null,
"transcript": "ENST00000695911.1",
"protein_id": "ENSP00000512262.1",
"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": 2375,
"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": 6,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.*1810C>T",
"hgvs_p": null,
"transcript": "ENST00000695913.1",
"protein_id": "ENSP00000512264.1",
"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": 3938,
"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": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.285C>T",
"hgvs_p": null,
"transcript": "ENST00000695918.1",
"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": 1842,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.*487C>T",
"hgvs_p": null,
"transcript": "ENST00000695911.1",
"protein_id": "ENSP00000512262.1",
"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": 2375,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "n.*1810C>T",
"hgvs_p": null,
"transcript": "ENST00000695913.1",
"protein_id": "ENSP00000512264.1",
"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": 3938,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": 6,
"intron_rank_end": null,
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"hgvs_c": "c.798+712C>T",
"hgvs_p": null,
"transcript": "ENST00000695901.1",
"protein_id": "ENSP00000512251.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 321,
"cds_start": -4,
"cds_end": null,
"cds_length": 966,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 966,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "CDCA7",
"gene_hgnc_id": 14628,
"dbsnp": "rs879253738",
"frequency_reference_population": 0.000004105107,
"hom_count_reference_population": 0,
"allele_count_reference_population": 6,
"gnomad_exomes_af": 0.00000410511,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 6,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.9830961227416992,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.619,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.9947,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.27,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 7.9,
"phylop100way_prediction": "Pathogenic",
"spliceai_max_score": 0.01,
"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": 6,
"acmg_classification": "Likely_pathogenic",
"acmg_criteria": "PM2,PP3_Strong",
"acmg_by_gene": [
{
"score": 6,
"benign_score": 0,
"pathogenic_score": 6,
"criteria": [
"PM2",
"PP3_Strong"
],
"verdict": "Likely_pathogenic",
"transcript": "ENST00000306721.8",
"gene_symbol": "CDCA7",
"hgnc_id": 14628,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1057C>T",
"hgvs_p": "p.Arg353Cys"
}
],
"clinvar_disease": "Immunodeficiency-centromeric instability-facial anomalies syndrome 3,not provided",
"clinvar_classification": "Likely pathogenic",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LP:1",
"phenotype_combined": "not provided|Immunodeficiency-centromeric instability-facial anomalies syndrome 3",
"pathogenicity_classification_combined": "Likely pathogenic",
"custom_annotations": null
}
],
"message": null
}