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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: 19-45138588-C-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=45138588&ref=C&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "19",
"pos": 45138588,
"ref": "C",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_019121.2",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr",
"transcript": "NM_019121.2",
"protein_id": "NP_061994.1",
"transcript_support_level": null,
"aa_start": 93,
"aa_end": null,
"aa_length": 691,
"cds_start": 277,
"cds_end": null,
"cds_length": 2076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000221462.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_019121.2"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr",
"transcript": "ENST00000221462.9",
"protein_id": "ENSP00000221462.3",
"transcript_support_level": 5,
"aa_start": 93,
"aa_end": null,
"aa_length": 691,
"cds_start": 277,
"cds_end": null,
"cds_length": 2076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_019121.2",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000221462.9"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.397C>A",
"hgvs_p": "p.Pro133Thr",
"transcript": "ENST00000945762.1",
"protein_id": "ENSP00000615821.1",
"transcript_support_level": null,
"aa_start": 133,
"aa_end": null,
"aa_length": 731,
"cds_start": 397,
"cds_end": null,
"cds_length": 2196,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000945762.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr",
"transcript": "ENST00000872789.1",
"protein_id": "ENSP00000542848.1",
"transcript_support_level": null,
"aa_start": 93,
"aa_end": null,
"aa_length": 696,
"cds_start": 277,
"cds_end": null,
"cds_length": 2091,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872789.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr",
"transcript": "ENST00000872790.1",
"protein_id": "ENSP00000542849.1",
"transcript_support_level": null,
"aa_start": 93,
"aa_end": null,
"aa_length": 696,
"cds_start": 277,
"cds_end": null,
"cds_length": 2091,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872790.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr",
"transcript": "ENST00000945763.1",
"protein_id": "ENSP00000615822.1",
"transcript_support_level": null,
"aa_start": 93,
"aa_end": null,
"aa_length": 691,
"cds_start": 277,
"cds_end": null,
"cds_length": 2076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000945763.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr",
"transcript": "ENST00000872788.1",
"protein_id": "ENSP00000542847.1",
"transcript_support_level": null,
"aa_start": 93,
"aa_end": null,
"aa_length": 689,
"cds_start": 277,
"cds_end": null,
"cds_length": 2070,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872788.1"
},
{
"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": 4,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "c.203-1918C>A",
"hgvs_p": null,
"transcript": "ENST00000544069.2",
"protein_id": "ENSP00000445252.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 185,
"cds_start": null,
"cds_end": null,
"cds_length": 560,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000544069.2"
},
{
"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": 7,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "MARK4",
"gene_hgnc_id": 13538,
"hgvs_c": "c.-277+59211C>A",
"hgvs_p": null,
"transcript": "ENST00000587566.5",
"protein_id": "ENSP00000465414.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 61,
"cds_start": null,
"cds_end": null,
"cds_length": 187,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000587566.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"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": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "n.292C>A",
"hgvs_p": null,
"transcript": "ENST00000544897.5",
"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": "ENST00000544897.5"
},
{
"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": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"hgvs_c": "n.13C>A",
"hgvs_p": null,
"transcript": "ENST00000545910.1",
"protein_id": null,
"transcript_support_level": 3,
"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": "ENST00000545910.1"
}
],
"gene_symbol": "PPP1R37",
"gene_hgnc_id": 27607,
"dbsnp": "rs1188408858",
"frequency_reference_population": 0.0000021683727,
"hom_count_reference_population": 0,
"allele_count_reference_population": 3,
"gnomad_exomes_af": 0.00000216837,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 3,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.25328874588012695,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.159,
"revel_prediction": "Benign",
"alphamissense_score": 0.118,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.25,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.498,
"phylop100way_prediction": "Uncertain_significance",
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_019121.2",
"gene_symbol": "PPP1R37",
"hgnc_id": 27607,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.277C>A",
"hgvs_p": "p.Pro93Thr"
},
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000587566.5",
"gene_symbol": "MARK4",
"hgnc_id": 13538,
"effects": [
"intron_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.-277+59211C>A",
"hgvs_p": null
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}