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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: 15-74897589-A-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=15&pos=74897589&ref=A&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "15",
"pos": 74897589,
"ref": "A",
"alt": "T",
"effect": "synonymous_variant",
"transcript": "NM_002435.3",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.1131A>T",
"hgvs_p": "p.Val377Val",
"transcript": "NM_002435.3",
"protein_id": "NP_002426.1",
"transcript_support_level": null,
"aa_start": 377,
"aa_end": null,
"aa_length": 423,
"cds_start": 1131,
"cds_end": null,
"cds_length": 1272,
"cdna_start": 1163,
"cdna_end": null,
"cdna_length": 5793,
"mane_select": "ENST00000352410.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.1131A>T",
"hgvs_p": "p.Val377Val",
"transcript": "ENST00000352410.9",
"protein_id": "ENSP00000318318.6",
"transcript_support_level": 1,
"aa_start": 377,
"aa_end": null,
"aa_length": 423,
"cds_start": 1131,
"cds_end": null,
"cds_length": 1272,
"cdna_start": 1163,
"cdna_end": null,
"cdna_length": 5793,
"mane_select": "NM_002435.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.948A>T",
"hgvs_p": "p.Val316Val",
"transcript": "ENST00000323744.10",
"protein_id": "ENSP00000318192.6",
"transcript_support_level": 1,
"aa_start": 316,
"aa_end": null,
"aa_length": 362,
"cds_start": 948,
"cds_end": null,
"cds_length": 1089,
"cdna_start": 980,
"cdna_end": null,
"cdna_length": 1619,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.*58A>T",
"hgvs_p": null,
"transcript": "ENST00000566377.5",
"protein_id": "ENSP00000455405.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 287,
"cds_start": -4,
"cds_end": null,
"cds_length": 864,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2809,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.1071A>T",
"hgvs_p": "p.Val357Val",
"transcript": "NM_001330372.2",
"protein_id": "NP_001317301.1",
"transcript_support_level": null,
"aa_start": 357,
"aa_end": null,
"aa_length": 403,
"cds_start": 1071,
"cds_end": null,
"cds_length": 1212,
"cdna_start": 1252,
"cdna_end": null,
"cdna_length": 5882,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.1071A>T",
"hgvs_p": "p.Val357Val",
"transcript": "ENST00000563786.5",
"protein_id": "ENSP00000455241.1",
"transcript_support_level": 5,
"aa_start": 357,
"aa_end": null,
"aa_length": 403,
"cds_start": 1071,
"cds_end": null,
"cds_length": 1212,
"cdna_start": 1252,
"cdna_end": null,
"cdna_length": 1707,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.981A>T",
"hgvs_p": "p.Val327Val",
"transcript": "NM_001289156.2",
"protein_id": "NP_001276085.1",
"transcript_support_level": null,
"aa_start": 327,
"aa_end": null,
"aa_length": 373,
"cds_start": 981,
"cds_end": null,
"cds_length": 1122,
"cdna_start": 1035,
"cdna_end": null,
"cdna_length": 5665,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.981A>T",
"hgvs_p": "p.Val327Val",
"transcript": "ENST00000535694.5",
"protein_id": "ENSP00000440447.1",
"transcript_support_level": 2,
"aa_start": 327,
"aa_end": null,
"aa_length": 373,
"cds_start": 981,
"cds_end": null,
"cds_length": 1122,
"cdna_start": 1035,
"cdna_end": null,
"cdna_length": 1523,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.948A>T",
"hgvs_p": "p.Val316Val",
"transcript": "NM_001289157.2",
"protein_id": "NP_001276086.1",
"transcript_support_level": null,
"aa_start": 316,
"aa_end": null,
"aa_length": 362,
"cds_start": 948,
"cds_end": null,
"cds_length": 1089,
"cdna_start": 980,
"cdna_end": null,
"cdna_length": 5610,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.306A>T",
"hgvs_p": "p.Val102Val",
"transcript": "ENST00000562800.5",
"protein_id": "ENSP00000457619.1",
"transcript_support_level": 3,
"aa_start": 102,
"aa_end": null,
"aa_length": 124,
"cds_start": 306,
"cds_end": null,
"cds_length": 375,
"cdna_start": 338,
"cdna_end": null,
"cdna_length": 407,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.1119A>T",
"hgvs_p": "p.Val373Val",
"transcript": "XM_047432536.1",
"protein_id": "XP_047288492.1",
"transcript_support_level": null,
"aa_start": 373,
"aa_end": null,
"aa_length": 419,
"cds_start": 1119,
"cds_end": null,
"cds_length": 1260,
"cdna_start": 1275,
"cdna_end": null,
"cdna_length": 5905,
"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": 1,
"exon_rank_end": null,
"exon_count": 1,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "n.2156A>T",
"hgvs_p": null,
"transcript": "ENST00000566556.1",
"protein_id": null,
"transcript_support_level": 6,
"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": 2795,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.*58A>T",
"hgvs_p": null,
"transcript": "NM_001289155.2",
"protein_id": "NP_001276084.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 287,
"cds_start": -4,
"cds_end": null,
"cds_length": 864,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5584,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.*58A>T",
"hgvs_p": null,
"transcript": "ENST00000567177.1",
"protein_id": "ENSP00000457013.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": 213,
"cds_start": -4,
"cds_end": null,
"cds_length": 642,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1068,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"hgvs_c": "c.*58A>T",
"hgvs_p": null,
"transcript": "XM_047432537.1",
"protein_id": "XP_047288493.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 283,
"cds_start": -4,
"cds_end": null,
"cds_length": 852,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5696,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "MPI",
"gene_hgnc_id": 7216,
"dbsnp": "rs1130741",
"frequency_reference_population": null,
"hom_count_reference_population": 0,
"allele_count_reference_population": 0,
"gnomad_exomes_af": null,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.6299999952316284,
"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": -0.63,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.478,
"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": -3,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong,BP7",
"acmg_by_gene": [
{
"score": -3,
"benign_score": 5,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong",
"BP7"
],
"verdict": "Likely_benign",
"transcript": "NM_002435.3",
"gene_symbol": "MPI",
"hgnc_id": 7216,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1131A>T",
"hgvs_p": "p.Val377Val"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}