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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: 6-28359683-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=28359683&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "6",
"pos": 28359683,
"ref": "G",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_024493.4",
"consequences": [
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "NM_024493.4",
"protein_id": "NP_077819.2",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 280,
"cdna_end": null,
"cdna_length": 4687,
"mane_select": "ENST00000252211.7",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_024493.4"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "ENST00000252211.7",
"protein_id": "ENSP00000252211.2",
"transcript_support_level": 1,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 280,
"cdna_end": null,
"cdna_length": 4687,
"mane_select": "NM_024493.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000252211.7"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "ENST00000377255.3",
"protein_id": "ENSP00000366465.1",
"transcript_support_level": 1,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 394,
"cdna_end": null,
"cdna_length": 4799,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000377255.3"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"5_prime_UTR_premature_start_codon_gain_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.-996G>T",
"hgvs_p": null,
"transcript": "XM_005249423.4",
"protein_id": "XP_005249480.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 405,
"cds_start": null,
"cds_end": null,
"cds_length": 1218,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5594,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005249423.4"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "NM_001242894.2",
"protein_id": "NP_001229823.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 397,
"cdna_end": null,
"cdna_length": 4804,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001242894.2"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "ENST00000881832.1",
"protein_id": "ENSP00000551891.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 213,
"cdna_end": null,
"cdna_length": 3009,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000881832.1"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "ENST00000935004.1",
"protein_id": "ENSP00000605063.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 294,
"cdna_end": null,
"cdna_length": 2276,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000935004.1"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "ENST00000935005.1",
"protein_id": "ENSP00000605064.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 504,
"cdna_end": null,
"cdna_length": 2486,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000935005.1"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "XM_006715215.3",
"protein_id": "XP_006715278.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 246,
"cdna_end": null,
"cdna_length": 4653,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_006715215.3"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "XM_047419373.1",
"protein_id": "XP_047275329.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 538,
"cds_start": 97,
"cds_end": null,
"cds_length": 1617,
"cdna_start": 601,
"cdna_end": null,
"cdna_length": 5008,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047419373.1"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "XM_047419374.1",
"protein_id": "XP_047275330.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 509,
"cds_start": 97,
"cds_end": null,
"cds_length": 1530,
"cdna_start": 601,
"cdna_end": null,
"cdna_length": 4921,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047419374.1"
},
{
"aa_ref": "G",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys",
"transcript": "XM_047419375.1",
"protein_id": "XP_047275331.1",
"transcript_support_level": null,
"aa_start": 33,
"aa_end": null,
"aa_length": 509,
"cds_start": 97,
"cds_end": null,
"cds_length": 1530,
"cdna_start": 246,
"cdna_end": null,
"cdna_length": 4566,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047419375.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.-996G>T",
"hgvs_p": null,
"transcript": "XM_005249423.4",
"protein_id": "XP_005249480.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 405,
"cds_start": null,
"cds_end": null,
"cds_length": 1218,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5594,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005249423.4"
},
{
"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": 5,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.-42-1641G>T",
"hgvs_p": null,
"transcript": "NM_001242895.2",
"protein_id": "NP_001229824.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 390,
"cds_start": null,
"cds_end": null,
"cds_length": 1173,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4223,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001242895.2"
},
{
"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": 5,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.-42-1641G>T",
"hgvs_p": null,
"transcript": "ENST00000341464.9",
"protein_id": "ENSP00000341883.5",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 390,
"cds_start": null,
"cds_end": null,
"cds_length": 1173,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1794,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000341464.9"
},
{
"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": 5,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.-42-1641G>T",
"hgvs_p": null,
"transcript": "XM_047419376.1",
"protein_id": "XP_047275332.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 390,
"cds_start": null,
"cds_end": null,
"cds_length": 1173,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4145,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047419376.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"hgvs_c": "c.-361G>T",
"hgvs_p": null,
"transcript": "XM_006715218.4",
"protein_id": "XP_006715281.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 390,
"cds_start": null,
"cds_end": null,
"cds_length": 1173,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4183,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_006715218.4"
}
],
"gene_symbol": "ZKSCAN3",
"gene_hgnc_id": 13853,
"dbsnp": "rs575160898",
"frequency_reference_population": 0.0000068149434,
"hom_count_reference_population": 0,
"allele_count_reference_population": 11,
"gnomad_exomes_af": 0.0000061564,
"gnomad_genomes_af": 0.0000131401,
"gnomad_exomes_ac": 9,
"gnomad_genomes_ac": 2,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.044679731130599976,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.007,
"revel_prediction": "Benign",
"alphamissense_score": 0.1232,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.75,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.404,
"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": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "NM_024493.4",
"gene_symbol": "ZKSCAN3",
"hgnc_id": 13853,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.97G>T",
"hgvs_p": "p.Gly33Cys"
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}