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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: 20-6085084-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=20&pos=6085084&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "20",
"pos": 6085084,
"ref": "T",
"alt": "C",
"effect": "synonymous_variant",
"transcript": "ENST00000217289.9",
"consequences": [
{
"aa_ref": "K",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "c.1575A>G",
"hgvs_p": "p.Lys525Lys",
"transcript": "NM_017671.5",
"protein_id": "NP_060141.3",
"transcript_support_level": null,
"aa_start": 525,
"aa_end": null,
"aa_length": 677,
"cds_start": 1575,
"cds_end": null,
"cds_length": 2034,
"cdna_start": 1850,
"cdna_end": null,
"cdna_length": 4637,
"mane_select": "ENST00000217289.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "K",
"aa_alt": "K",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "c.1575A>G",
"hgvs_p": "p.Lys525Lys",
"transcript": "ENST00000217289.9",
"protein_id": "ENSP00000217289.4",
"transcript_support_level": 1,
"aa_start": 525,
"aa_end": null,
"aa_length": 677,
"cds_start": 1575,
"cds_end": null,
"cds_length": 2034,
"cdna_start": 1850,
"cdna_end": null,
"cdna_length": 4637,
"mane_select": "NM_017671.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "n.535A>G",
"hgvs_p": null,
"transcript": "ENST00000478194.1",
"protein_id": null,
"transcript_support_level": 1,
"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": 3322,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "n.*1077A>G",
"hgvs_p": null,
"transcript": "ENST00000536936.1",
"protein_id": "ENSP00000441063.2",
"transcript_support_level": 1,
"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": 3229,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "n.*1077A>G",
"hgvs_p": null,
"transcript": "ENST00000536936.1",
"protein_id": "ENSP00000441063.2",
"transcript_support_level": 1,
"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": 3229,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "K",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "c.1575A>G",
"hgvs_p": "p.Lys525Lys",
"transcript": "ENST00000699095.1",
"protein_id": "ENSP00000514127.1",
"transcript_support_level": null,
"aa_start": 525,
"aa_end": null,
"aa_length": 677,
"cds_start": 1575,
"cds_end": null,
"cds_length": 2034,
"cdna_start": 5094,
"cdna_end": null,
"cdna_length": 7271,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "K",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "c.1575A>G",
"hgvs_p": "p.Lys525Lys",
"transcript": "XM_024451935.2",
"protein_id": "XP_024307703.1",
"transcript_support_level": null,
"aa_start": 525,
"aa_end": null,
"aa_length": 677,
"cds_start": 1575,
"cds_end": null,
"cds_length": 2034,
"cdna_start": 1853,
"cdna_end": null,
"cdna_length": 4640,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "K",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "c.1575A>G",
"hgvs_p": "p.Lys525Lys",
"transcript": "XM_047440259.1",
"protein_id": "XP_047296215.1",
"transcript_support_level": null,
"aa_start": 525,
"aa_end": null,
"aa_length": 677,
"cds_start": 1575,
"cds_end": null,
"cds_length": 2034,
"cdna_start": 2017,
"cdna_end": null,
"cdna_length": 4804,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "K",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"hgvs_c": "c.1290A>G",
"hgvs_p": "p.Lys430Lys",
"transcript": "XM_047440260.1",
"protein_id": "XP_047296216.1",
"transcript_support_level": null,
"aa_start": 430,
"aa_end": null,
"aa_length": 582,
"cds_start": 1290,
"cds_end": null,
"cds_length": 1749,
"cdna_start": 1513,
"cdna_end": null,
"cdna_length": 4300,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "FERMT1",
"gene_hgnc_id": 15889,
"dbsnp": "rs2232073",
"frequency_reference_population": 0.3853677,
"hom_count_reference_population": 123102,
"allele_count_reference_population": 621158,
"gnomad_exomes_af": 0.382593,
"gnomad_genomes_af": 0.412075,
"gnomad_exomes_ac": 558652,
"gnomad_genomes_ac": 62506,
"gnomad_exomes_homalt": 109843,
"gnomad_genomes_homalt": 13259,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.5299999713897705,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.53,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.126,
"phylop100way_prediction": "Benign",
"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": -21,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BP7,BA1",
"acmg_by_gene": [
{
"score": -21,
"benign_score": 21,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BP7",
"BA1"
],
"verdict": "Benign",
"transcript": "ENST00000217289.9",
"gene_symbol": "FERMT1",
"hgnc_id": 15889,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1575A>G",
"hgvs_p": "p.Lys525Lys"
}
],
"clinvar_disease": "Kindler syndrome,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:7",
"phenotype_combined": "not specified|Kindler syndrome|not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}