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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: 1-36137882-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=36137882&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "1",
"pos": 36137882,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_001270894.2",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.337G>A",
"hgvs_p": "p.Val113Met",
"transcript": "NM_014408.5",
"protein_id": "NP_055223.1",
"transcript_support_level": null,
"aa_start": 113,
"aa_end": null,
"aa_length": 180,
"cds_start": 337,
"cds_end": null,
"cds_length": 543,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000373166.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_014408.5"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.337G>A",
"hgvs_p": "p.Val113Met",
"transcript": "ENST00000373166.8",
"protein_id": "ENSP00000362261.3",
"transcript_support_level": 1,
"aa_start": 113,
"aa_end": null,
"aa_length": 180,
"cds_start": 337,
"cds_end": null,
"cds_length": 543,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_014408.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000373166.8"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.337G>A",
"hgvs_p": "p.Val113Met",
"transcript": "ENST00000923688.1",
"protein_id": "ENSP00000593747.1",
"transcript_support_level": null,
"aa_start": 113,
"aa_end": null,
"aa_length": 195,
"cds_start": 337,
"cds_end": null,
"cds_length": 588,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923688.1"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.361G>A",
"hgvs_p": "p.Val121Met",
"transcript": "NM_001270894.2",
"protein_id": "NP_001257823.1",
"transcript_support_level": null,
"aa_start": 121,
"aa_end": null,
"aa_length": 188,
"cds_start": 361,
"cds_end": null,
"cds_length": 567,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001270894.2"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.361G>A",
"hgvs_p": "p.Val121Met",
"transcript": "ENST00000616395.4",
"protein_id": "ENSP00000480332.1",
"transcript_support_level": 3,
"aa_start": 121,
"aa_end": null,
"aa_length": 188,
"cds_start": 361,
"cds_end": null,
"cds_length": 567,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000616395.4"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.337G>A",
"hgvs_p": "p.Val113Met",
"transcript": "ENST00000905432.1",
"protein_id": "ENSP00000575491.1",
"transcript_support_level": null,
"aa_start": 113,
"aa_end": null,
"aa_length": 178,
"cds_start": 337,
"cds_end": null,
"cds_length": 537,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000905432.1"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.199G>A",
"hgvs_p": "p.Val67Met",
"transcript": "NM_001270895.2",
"protein_id": "NP_001257824.1",
"transcript_support_level": null,
"aa_start": 67,
"aa_end": null,
"aa_length": 134,
"cds_start": 199,
"cds_end": null,
"cds_length": 405,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001270895.2"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.199G>A",
"hgvs_p": "p.Val67Met",
"transcript": "NM_001270896.2",
"protein_id": "NP_001257825.1",
"transcript_support_level": null,
"aa_start": 67,
"aa_end": null,
"aa_length": 134,
"cds_start": 199,
"cds_end": null,
"cds_length": 405,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001270896.2"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.199G>A",
"hgvs_p": "p.Val67Met",
"transcript": "ENST00000373162.5",
"protein_id": "ENSP00000362256.1",
"transcript_support_level": 2,
"aa_start": 67,
"aa_end": null,
"aa_length": 134,
"cds_start": 199,
"cds_end": null,
"cds_length": 405,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000373162.5"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.199G>A",
"hgvs_p": "p.Val67Met",
"transcript": "ENST00000373163.5",
"protein_id": "ENSP00000362257.1",
"transcript_support_level": 3,
"aa_start": 67,
"aa_end": null,
"aa_length": 134,
"cds_start": 199,
"cds_end": null,
"cds_length": 405,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000373163.5"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.199G>A",
"hgvs_p": "p.Val67Met",
"transcript": "ENST00000617904.4",
"protein_id": "ENSP00000480648.1",
"transcript_support_level": 2,
"aa_start": 67,
"aa_end": null,
"aa_length": 134,
"cds_start": 199,
"cds_end": null,
"cds_length": 405,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000617904.4"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.139G>A",
"hgvs_p": "p.Val47Met",
"transcript": "NM_001270897.2",
"protein_id": "NP_001257826.1",
"transcript_support_level": null,
"aa_start": 47,
"aa_end": null,
"aa_length": 114,
"cds_start": 139,
"cds_end": null,
"cds_length": 345,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001270897.2"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.139G>A",
"hgvs_p": "p.Val47Met",
"transcript": "ENST00000616074.5",
"protein_id": "ENSP00000482052.1",
"transcript_support_level": 5,
"aa_start": 47,
"aa_end": null,
"aa_length": 114,
"cds_start": 139,
"cds_end": null,
"cds_length": 345,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000616074.5"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.139G>A",
"hgvs_p": "p.Val47Met",
"transcript": "ENST00000923687.1",
"protein_id": "ENSP00000593746.1",
"transcript_support_level": null,
"aa_start": 47,
"aa_end": null,
"aa_length": 112,
"cds_start": 139,
"cds_end": null,
"cds_length": 339,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923687.1"
},
{
"aa_ref": "V",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "c.85G>A",
"hgvs_p": "p.Val29Met",
"transcript": "ENST00000851013.1",
"protein_id": "ENSP00000521084.1",
"transcript_support_level": null,
"aa_start": 29,
"aa_end": null,
"aa_length": 96,
"cds_start": 85,
"cds_end": null,
"cds_length": 291,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000851013.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "n.*129G>A",
"hgvs_p": null,
"transcript": "ENST00000373159.2",
"protein_id": "ENSP00000362253.1",
"transcript_support_level": null,
"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": "nonsense_mediated_decay",
"feature": "ENST00000373159.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "n.1127G>A",
"hgvs_p": null,
"transcript": "ENST00000462715.1",
"protein_id": null,
"transcript_support_level": 2,
"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": "ENST00000462715.1"
},
{
"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": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "n.492G>A",
"hgvs_p": null,
"transcript": "NR_073097.2",
"protein_id": null,
"transcript_support_level": null,
"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": "NR_073097.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "n.*129G>A",
"hgvs_p": null,
"transcript": "ENST00000373159.2",
"protein_id": "ENSP00000362253.1",
"transcript_support_level": null,
"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": "nonsense_mediated_decay",
"feature": "ENST00000373159.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "n.161-560G>A",
"hgvs_p": null,
"transcript": "ENST00000469757.1",
"protein_id": null,
"transcript_support_level": 2,
"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": "ENST00000469757.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"hgvs_c": "n.151-560G>A",
"hgvs_p": null,
"transcript": "NR_073098.2",
"protein_id": null,
"transcript_support_level": null,
"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": "NR_073098.2"
}
],
"gene_symbol": "TRAPPC3",
"gene_hgnc_id": 19942,
"dbsnp": "rs1644049073",
"frequency_reference_population": 0.0000013680882,
"hom_count_reference_population": 0,
"allele_count_reference_population": 2,
"gnomad_exomes_af": 0.00000136809,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 2,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.42116883397102356,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.163,
"revel_prediction": "Benign",
"alphamissense_score": 0.3056,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.22,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 7.905,
"phylop100way_prediction": "Pathogenic",
"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": "Uncertain_significance",
"acmg_criteria": "PM2,PP2,BP4",
"acmg_by_gene": [
{
"score": 2,
"benign_score": 1,
"pathogenic_score": 3,
"criteria": [
"PM2",
"PP2",
"BP4"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001270894.2",
"gene_symbol": "TRAPPC3",
"hgnc_id": 19942,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.361G>A",
"hgvs_p": "p.Val121Met"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}