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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: 4-57040848-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=57040848&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "4",
"pos": 57040848,
"ref": "C",
"alt": "T",
"effect": "synonymous_variant",
"transcript": "NM_001553.3",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "NM_001553.3",
"protein_id": "NP_001544.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 282,
"cds_start": 561,
"cds_end": null,
"cds_length": 849,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000295666.6",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001553.3"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "ENST00000295666.6",
"protein_id": "ENSP00000295666.4",
"transcript_support_level": 1,
"aa_start": 187,
"aa_end": null,
"aa_length": 282,
"cds_start": 561,
"cds_end": null,
"cds_length": 849,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_001553.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000295666.6"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.669G>A",
"hgvs_p": "p.Pro223Pro",
"transcript": "ENST00000896424.1",
"protein_id": "ENSP00000566483.1",
"transcript_support_level": null,
"aa_start": 223,
"aa_end": null,
"aa_length": 318,
"cds_start": 669,
"cds_end": null,
"cds_length": 957,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896424.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.636G>A",
"hgvs_p": "p.Pro212Pro",
"transcript": "ENST00000947223.1",
"protein_id": "ENSP00000617282.1",
"transcript_support_level": null,
"aa_start": 212,
"aa_end": null,
"aa_length": 307,
"cds_start": 636,
"cds_end": null,
"cds_length": 924,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000947223.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.594G>A",
"hgvs_p": "p.Pro198Pro",
"transcript": "ENST00000896421.1",
"protein_id": "ENSP00000566480.1",
"transcript_support_level": null,
"aa_start": 198,
"aa_end": null,
"aa_length": 293,
"cds_start": 594,
"cds_end": null,
"cds_length": 882,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896421.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.591G>A",
"hgvs_p": "p.Pro197Pro",
"transcript": "ENST00000896425.1",
"protein_id": "ENSP00000566484.1",
"transcript_support_level": null,
"aa_start": 197,
"aa_end": null,
"aa_length": 292,
"cds_start": 591,
"cds_end": null,
"cds_length": 879,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896425.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "ENST00000896426.1",
"protein_id": "ENSP00000566485.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 288,
"cds_start": 561,
"cds_end": null,
"cds_length": 867,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896426.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "ENST00000896420.1",
"protein_id": "ENSP00000566479.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 280,
"cds_start": 561,
"cds_end": null,
"cds_length": 843,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896420.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "NM_001253835.2",
"protein_id": "NP_001240764.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 279,
"cds_start": 561,
"cds_end": null,
"cds_length": 840,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001253835.2"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "ENST00000514062.2",
"protein_id": "ENSP00000486293.1",
"transcript_support_level": 2,
"aa_start": 187,
"aa_end": null,
"aa_length": 279,
"cds_start": 561,
"cds_end": null,
"cds_length": 840,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000514062.2"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.483G>A",
"hgvs_p": "p.Pro161Pro",
"transcript": "ENST00000896422.1",
"protein_id": "ENSP00000566481.1",
"transcript_support_level": null,
"aa_start": 161,
"aa_end": null,
"aa_length": 256,
"cds_start": 483,
"cds_end": null,
"cds_length": 771,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896422.1"
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro",
"transcript": "ENST00000896423.1",
"protein_id": "ENSP00000566482.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 243,
"cds_start": 561,
"cds_end": null,
"cds_length": 732,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896423.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "c.451-7537G>A",
"hgvs_p": null,
"transcript": "ENST00000896419.1",
"protein_id": "ENSP00000566478.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 237,
"cds_start": null,
"cds_end": null,
"cds_length": 714,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000896419.1"
},
{
"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": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"hgvs_c": "n.201G>A",
"hgvs_p": null,
"transcript": "ENST00000512512.3",
"protein_id": null,
"transcript_support_level": 5,
"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": "ENST00000512512.3"
}
],
"gene_symbol": "IGFBP7",
"gene_hgnc_id": 5476,
"dbsnp": "rs35855328",
"frequency_reference_population": 0.010276045,
"hom_count_reference_population": 125,
"allele_count_reference_population": 16576,
"gnomad_exomes_af": 0.0105829,
"gnomad_genomes_af": 0.00733334,
"gnomad_exomes_ac": 15459,
"gnomad_genomes_ac": 1117,
"gnomad_exomes_homalt": 120,
"gnomad_genomes_homalt": 5,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.33000001311302185,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.33,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.105,
"phylop100way_prediction": "Benign",
"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": -15,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Moderate,BP6_Very_Strong,BP7,BS2",
"acmg_by_gene": [
{
"score": -15,
"benign_score": 15,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BP6_Very_Strong",
"BP7",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_001553.3",
"gene_symbol": "IGFBP7",
"hgnc_id": 5476,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.561G>A",
"hgvs_p": "p.Pro187Pro"
}
],
"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
}