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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: 4-119158088-C-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=119158088&ref=C&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "4",
"pos": 119158088,
"ref": "C",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_016599.5",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "NM_016599.5",
"protein_id": "NP_057683.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 264,
"cds_start": 313,
"cds_end": null,
"cds_length": 795,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000307128.6",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_016599.5"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "ENST00000307128.6",
"protein_id": "ENSP00000306997.6",
"transcript_support_level": 1,
"aa_start": 105,
"aa_end": null,
"aa_length": 264,
"cds_start": 313,
"cds_end": null,
"cds_length": 795,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_016599.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000307128.6"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "ENST00000958711.1",
"protein_id": "ENSP00000628770.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 295,
"cds_start": 313,
"cds_end": null,
"cds_length": 888,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000958711.1"
},
{
"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": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "ENST00000890354.1",
"protein_id": "ENSP00000560413.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 264,
"cds_start": 313,
"cds_end": null,
"cds_length": 795,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000890354.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "ENST00000890356.1",
"protein_id": "ENSP00000560415.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 264,
"cds_start": 313,
"cds_end": null,
"cds_length": 795,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000890356.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "ENST00000958709.1",
"protein_id": "ENSP00000628768.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 264,
"cds_start": 313,
"cds_end": null,
"cds_length": 795,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000958709.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "ENST00000958710.1",
"protein_id": "ENSP00000628769.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 264,
"cds_start": 313,
"cds_end": null,
"cds_length": 795,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000958710.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.295C>A",
"hgvs_p": "p.Pro99Thr",
"transcript": "ENST00000890353.1",
"protein_id": "ENSP00000560412.1",
"transcript_support_level": null,
"aa_start": 99,
"aa_end": null,
"aa_length": 258,
"cds_start": 295,
"cds_end": null,
"cds_length": 777,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000890353.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.172C>A",
"hgvs_p": "p.Pro58Thr",
"transcript": "ENST00000890355.1",
"protein_id": "ENSP00000560414.1",
"transcript_support_level": null,
"aa_start": 58,
"aa_end": null,
"aa_length": 217,
"cds_start": 172,
"cds_end": null,
"cds_length": 654,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000890355.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "NM_001440645.1",
"protein_id": "NP_001427574.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 210,
"cds_start": 313,
"cds_end": null,
"cds_length": 633,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001440645.1"
},
{
"aa_ref": "P",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr",
"transcript": "NM_001440646.1",
"protein_id": "NP_001427575.1",
"transcript_support_level": null,
"aa_start": 105,
"aa_end": null,
"aa_length": 195,
"cds_start": 313,
"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": "NM_001440646.1"
}
],
"gene_symbol": "MYOZ2",
"gene_hgnc_id": 1330,
"dbsnp": "rs748809573",
"frequency_reference_population": 0.0000034204359,
"hom_count_reference_population": 0,
"allele_count_reference_population": 5,
"gnomad_exomes_af": 0.00000342044,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 5,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.7397891879081726,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.23,
"revel_prediction": "Benign",
"alphamissense_score": 0.089,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.23,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.585,
"phylop100way_prediction": "Uncertain_significance",
"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": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BS2",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "NM_016599.5",
"gene_symbol": "MYOZ2",
"hgnc_id": 1330,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.313C>A",
"hgvs_p": "p.Pro105Thr"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}