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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: 3-4693723-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=4693723&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 7,
"criteria": [
"BP4_Strong",
"BP6_Moderate",
"BP7"
],
"effects": [
"synonymous_variant"
],
"gene_symbol": "ITPR1",
"hgnc_id": 6180,
"hgvs_c": "c.4263C>T",
"hgvs_p": "p.His1421His",
"inheritance_mode": "AD,AR",
"pathogenic_score": 0,
"score": -7,
"transcript": "NM_001378452.1",
"verdict": "Benign"
}
],
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Moderate,BP7",
"acmg_score": -7,
"allele_count_reference_population": 31,
"alphamissense_prediction": null,
"alphamissense_score": null,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.68,
"chr": "3",
"clinvar_classification": "Likely benign",
"clinvar_disease": "not provided",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"computational_prediction_selected": "Benign",
"computational_score_selected": -0.6800000071525574,
"computational_source_selected": "BayesDel_noAF",
"consequences": [
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2758,
"aa_ref": "H",
"aa_start": 1421,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9908,
"cdna_start": 4613,
"cds_end": null,
"cds_length": 8277,
"cds_start": 4263,
"consequences": [
"synonymous_variant"
],
"exon_count": 62,
"exon_rank": 33,
"exon_rank_end": null,
"feature": "NM_001378452.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4263C>T",
"hgvs_p": "p.His1421His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000649015.2",
"protein_coding": true,
"protein_id": "NP_001365381.1",
"strand": true,
"transcript": "NM_001378452.1",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2758,
"aa_ref": "H",
"aa_start": 1421,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9908,
"cdna_start": 4613,
"cds_end": null,
"cds_length": 8277,
"cds_start": 4263,
"consequences": [
"synonymous_variant"
],
"exon_count": 62,
"exon_rank": 33,
"exon_rank_end": null,
"feature": "ENST00000649015.2",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4263C>T",
"hgvs_p": "p.His1421His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_001378452.1",
"protein_coding": true,
"protein_id": "ENSP00000497605.1",
"strand": true,
"transcript": "ENST00000649015.2",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2750,
"aa_ref": "H",
"aa_start": 1412,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9876,
"cdna_start": 4586,
"cds_end": null,
"cds_length": 8253,
"cds_start": 4236,
"consequences": [
"synonymous_variant"
],
"exon_count": 62,
"exon_rank": 33,
"exon_rank_end": null,
"feature": "ENST00000354582.12",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4236C>T",
"hgvs_p": "p.His1412His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000346595.8",
"strand": true,
"transcript": "ENST00000354582.12",
"transcript_support_level": 5
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2749,
"aa_ref": "H",
"aa_start": 1412,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9767,
"cdna_start": 4480,
"cds_end": null,
"cds_length": 8250,
"cds_start": 4236,
"consequences": [
"synonymous_variant"
],
"exon_count": 62,
"exon_rank": 33,
"exon_rank_end": null,
"feature": "ENST00000648266.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4236C>T",
"hgvs_p": "p.His1412His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000498014.1",
"strand": true,
"transcript": "ENST00000648266.1",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2744,
"aa_ref": "H",
"aa_start": 1406,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9353,
"cdna_start": 4355,
"cds_end": null,
"cds_length": 8235,
"cds_start": 4218,
"consequences": [
"synonymous_variant"
],
"exon_count": 61,
"exon_rank": 32,
"exon_rank_end": null,
"feature": "ENST00000650294.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4218C>T",
"hgvs_p": "p.His1406His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000498056.1",
"strand": true,
"transcript": "ENST00000650294.1",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2743,
"aa_ref": "H",
"aa_start": 1406,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9647,
"cdna_start": 4463,
"cds_end": null,
"cds_length": 8232,
"cds_start": 4218,
"consequences": [
"synonymous_variant"
],
"exon_count": 61,
"exon_rank": 32,
"exon_rank_end": null,
"feature": "ENST00000443694.5",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4218C>T",
"hgvs_p": "p.His1406His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000401671.2",
"strand": true,
"transcript": "ENST00000443694.5",
"transcript_support_level": 1
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2734,
"aa_ref": "H",
"aa_start": 1397,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9311,
"cdna_start": 4196,
"cds_end": null,
"cds_length": 8205,
"cds_start": 4191,
"consequences": [
"synonymous_variant"
],
"exon_count": 59,
"exon_rank": 30,
"exon_rank_end": null,
"feature": "ENST00000648309.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4191C>T",
"hgvs_p": "p.His1397His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000497026.1",
"strand": true,
"transcript": "ENST00000648309.1",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2710,
"aa_ref": "H",
"aa_start": 1412,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9767,
"cdna_start": 4589,
"cds_end": null,
"cds_length": 8133,
"cds_start": 4236,
"consequences": [
"synonymous_variant"
],
"exon_count": 59,
"exon_rank": 33,
"exon_rank_end": null,
"feature": "ENST00000357086.10",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4236C>T",
"hgvs_p": "p.His1412His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000349597.4",
"strand": true,
"transcript": "ENST00000357086.10",
"transcript_support_level": 1
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2695,
"aa_ref": "H",
"aa_start": 1397,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 9506,
"cdna_start": 4437,
"cds_end": null,
"cds_length": 8088,
"cds_start": 4191,
"consequences": [
"synonymous_variant"
],
"exon_count": 58,
"exon_rank": 32,
"exon_rank_end": null,
"feature": "ENST00000456211.8",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4191C>T",
"hgvs_p": "p.His1397His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000397885.2",
"strand": true,
"transcript": "ENST00000456211.8",
"transcript_support_level": 1
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2012,
"aa_ref": "H",
"aa_start": 691,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 6998,
"cdna_start": 2073,
"cds_end": null,
"cds_length": 6039,
"cds_start": 2073,
"consequences": [
"synonymous_variant"
],
"exon_count": 42,
"exon_rank": 14,
"exon_rank_end": null,
"feature": "ENST00000648038.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.2073C>T",
"hgvs_p": "p.His691His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000497872.1",
"strand": true,
"transcript": "ENST00000648038.1",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 1817,
"aa_ref": "H",
"aa_start": 521,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 6517,
"cdna_start": 1565,
"cds_end": null,
"cds_length": 5454,
"cds_start": 1563,
"consequences": [
"synonymous_variant"
],
"exon_count": 39,
"exon_rank": 11,
"exon_rank_end": null,
"feature": "ENST00000648431.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.1563C>T",
"hgvs_p": "p.His521His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000498149.1",
"strand": true,
"transcript": "ENST00000648431.1",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 1738,
"aa_ref": "H",
"aa_start": 390,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 6373,
"cdna_start": 1171,
"cds_end": null,
"cds_length": 5217,
"cds_start": 1170,
"consequences": [
"synonymous_variant"
],
"exon_count": 39,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000648212.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.1170C>T",
"hgvs_p": "p.His390His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000498022.1",
"strand": true,
"transcript": "ENST00000648212.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 721,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 2799,
"cdna_start": null,
"cds_end": null,
"cds_length": 2166,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 20,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000544951.6",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.996+39837C>T",
"hgvs_p": null,
"intron_rank": 12,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000440564.1",
"strand": true,
"transcript": "ENST00000544951.6",
"transcript_support_level": 1
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2743,
"aa_ref": "H",
"aa_start": 1406,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9863,
"cdna_start": 4568,
"cds_end": null,
"cds_length": 8232,
"cds_start": 4218,
"consequences": [
"synonymous_variant"
],
"exon_count": 61,
"exon_rank": 32,
"exon_rank_end": null,
"feature": "NM_001168272.2",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4218C>T",
"hgvs_p": "p.His1406His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001161744.1",
"strand": true,
"transcript": "NM_001168272.2",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2710,
"aa_ref": "H",
"aa_start": 1412,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9764,
"cdna_start": 4586,
"cds_end": null,
"cds_length": 8133,
"cds_start": 4236,
"consequences": [
"synonymous_variant"
],
"exon_count": 59,
"exon_rank": 33,
"exon_rank_end": null,
"feature": "NM_001099952.4",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4236C>T",
"hgvs_p": "p.His1412His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001093422.2",
"strand": true,
"transcript": "NM_001099952.4",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 2695,
"aa_ref": "H",
"aa_start": 1397,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9719,
"cdna_start": 4541,
"cds_end": null,
"cds_length": 8088,
"cds_start": 4191,
"consequences": [
"synonymous_variant"
],
"exon_count": 58,
"exon_rank": 32,
"exon_rank_end": null,
"feature": "NM_002222.7",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.4191C>T",
"hgvs_p": "p.His1397His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_002213.5",
"strand": true,
"transcript": "NM_002222.7",
"transcript_support_level": null
},
{
"aa_alt": "H",
"aa_end": null,
"aa_length": 1547,
"aa_ref": "H",
"aa_start": 198,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5773,
"cdna_start": 595,
"cds_end": null,
"cds_length": 4644,
"cds_start": 594,
"consequences": [
"synonymous_variant"
],
"exon_count": 34,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000648016.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "c.594C>T",
"hgvs_p": "p.His198His",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000496893.1",
"strand": true,
"transcript": "ENST00000648016.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "nonsense_mediated_decay",
"canonical": false,
"cdna_end": null,
"cdna_length": 9305,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 61,
"exon_rank": 31,
"exon_rank_end": null,
"feature": "ENST00000302640.13",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "n.4236C>T",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": "ENSP00000306253.9",
"strand": true,
"transcript": "ENST00000302640.13",
"transcript_support_level": 5
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 3172,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 15,
"exon_rank": 7,
"exon_rank_end": null,
"feature": "ENST00000647624.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "n.975C>T",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": true,
"transcript": "ENST00000647624.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 3058,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 8,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000647673.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "n.255C>T",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": true,
"transcript": "ENST00000647673.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 6659,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 40,
"exon_rank": 11,
"exon_rank_end": null,
"feature": "ENST00000647717.1",
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"hgvs_c": "n.1764C>T",
"hgvs_p": null,
"intron_rank": null,
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"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": true,
"transcript": "ENST00000647717.1",
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}
],
"custom_annotations": null,
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"dbscsnv_ada_score": null,
"dbsnp": "rs61757110",
"effect": "synonymous_variant",
"frequency_reference_population": 0.000019221468,
"gene_hgnc_id": 6180,
"gene_symbol": "ITPR1",
"gnomad_exomes_ac": 30,
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"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": "Likely benign",
"phenotype_combined": "not provided",
"phylop100way_prediction": "Benign",
"phylop100way_score": -1.556,
"pos": 4693723,
"ref": "C",
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"revel_score": null,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
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"transcript": "NM_001378452.1"
}
]
}