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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: 6-56617018-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=56617018&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "6",
"pos": 56617018,
"ref": "T",
"alt": "C",
"effect": "missense_variant",
"transcript": "NM_001723.7",
"consequences": [
{
"aa_ref": "K",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.6449A>G",
"hgvs_p": "p.Lys2150Arg",
"transcript": "NM_001723.7",
"protein_id": "NP_001714.1",
"transcript_support_level": null,
"aa_start": 2150,
"aa_end": null,
"aa_length": 2649,
"cds_start": 6449,
"cds_end": null,
"cds_length": 7950,
"cdna_start": 6550,
"cdna_end": null,
"cdna_length": 8971,
"mane_select": null,
"mane_plus": "ENST00000370765.11",
"biotype": null,
"feature": null
},
{
"aa_ref": "K",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.6449A>G",
"hgvs_p": "p.Lys2150Arg",
"transcript": "ENST00000370765.11",
"protein_id": "ENSP00000359801.6",
"transcript_support_level": 1,
"aa_start": 2150,
"aa_end": null,
"aa_length": 2649,
"cds_start": 6449,
"cds_end": null,
"cds_length": 7950,
"cdna_start": 6550,
"cdna_end": null,
"cdna_length": 8971,
"mane_select": null,
"mane_plus": "NM_001723.7",
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 104,
"intron_rank": 36,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4930-2534A>G",
"hgvs_p": null,
"transcript": "NM_001374736.1",
"protein_id": "NP_001361665.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 7818,
"cds_start": -4,
"cds_end": null,
"cds_length": 23457,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 24709,
"mane_select": "ENST00000680361.1",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 104,
"intron_rank": 36,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4930-2534A>G",
"hgvs_p": null,
"transcript": "ENST00000680361.1",
"protein_id": "ENSP00000505098.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 7818,
"cds_start": -4,
"cds_end": null,
"cds_length": 23457,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 24709,
"mane_select": "NM_001374736.1",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 84,
"intron_rank": 22,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.3319-2534A>G",
"hgvs_p": null,
"transcript": "ENST00000244364.10",
"protein_id": "ENSP00000244364.6",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 5171,
"cds_start": -4,
"cds_end": null,
"cds_length": 15516,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 16742,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": 22,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.3319-2534A>G",
"hgvs_p": null,
"transcript": "ENST00000439203.5",
"protein_id": "ENSP00000404924.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 3059,
"cds_start": -4,
"cds_end": null,
"cds_length": 9180,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 9180,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 103,
"intron_rank": 36,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4957-2534A>G",
"hgvs_p": null,
"transcript": "NM_001374734.1",
"protein_id": "NP_001361663.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 7803,
"cds_start": -4,
"cds_end": null,
"cds_length": 23412,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 24664,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 103,
"intron_rank": 36,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4930-2534A>G",
"hgvs_p": null,
"transcript": "NM_001374722.1",
"protein_id": "NP_001361651.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 7794,
"cds_start": -4,
"cds_end": null,
"cds_length": 23385,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 24637,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 98,
"intron_rank": 32,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4297-2534A>G",
"hgvs_p": null,
"transcript": "NM_001374729.1",
"protein_id": "NP_001361658.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 7461,
"cds_start": -4,
"cds_end": null,
"cds_length": 22386,
"cdna_start": null,
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"cdna_length": 23897,
"mane_select": null,
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"biotype": null,
"feature": null
},
{
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"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
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"exon_count": 98,
"intron_rank": 32,
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"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4297-2534A>G",
"hgvs_p": null,
"transcript": "ENST00000361203.7",
"protein_id": "ENSP00000354508.3",
"transcript_support_level": 5,
"aa_start": null,
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"cds_start": -4,
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"mane_select": null,
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"feature": null
},
{
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"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
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"exon_count": 97,
"intron_rank": 35,
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"gene_symbol": "DST",
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"hgvs_c": "c.4831-2534A>G",
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"transcript": "NM_001144769.5",
"protein_id": "NP_001138241.1",
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},
{
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],
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"gene_symbol": "DST",
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},
{
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"consequences": [
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],
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"gene_symbol": "DST",
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"transcript": "NM_001144770.2",
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},
{
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],
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"gene_symbol": "DST",
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},
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},
{
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"strand": false,
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],
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],
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"hgvs_c": "c.4297-2534A>G",
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"transcript": "NM_001386100.1",
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},
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],
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"intron_rank": 33,
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"gene_symbol": "DST",
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"hgvs_c": "c.4417-2534A>G",
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"transcript": "ENST00000520645.6",
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],
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"hgvs_c": "c.4297-2534A>G",
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],
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],
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},
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"consequences": [
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],
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"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.4645-2534A>G",
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"transcript": "ENST00000652573.1",
"protein_id": "ENSP00000498983.1",
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"feature": null
},
{
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"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
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"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"hgvs_c": "c.*182A>G",
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"transcript": "ENST00000522360.5",
"protein_id": "ENSP00000428068.1",
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"aa_start": null,
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"cds_length": 528,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 530,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "DST",
"gene_hgnc_id": 1090,
"dbsnp": "rs755587547",
"frequency_reference_population": 0.00013892214,
"hom_count_reference_population": 0,
"allele_count_reference_population": 224,
"gnomad_exomes_af": 0.000143815,
"gnomad_genomes_af": 0.0000919818,
"gnomad_exomes_ac": 210,
"gnomad_genomes_ac": 14,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.06438004970550537,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.077,
"revel_prediction": "Benign",
"alphamissense_score": null,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.48,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 2.219,
"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": -4,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4_Strong",
"acmg_by_gene": [
{
"score": -4,
"benign_score": 4,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "NM_001723.7",
"gene_symbol": "DST",
"hgnc_id": 1090,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.6449A>G",
"hgvs_p": "p.Lys2150Arg"
}
],
"clinvar_disease": " localized or generalized intermediate, with BP230 deficiency,Epidermolysis bullosa simplex 3,Hereditary sensory and autonomic neuropathy type 6,not provided",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "US:3 O:1",
"phenotype_combined": "Epidermolysis bullosa simplex 3, localized or generalized intermediate, with BP230 deficiency;Hereditary sensory and autonomic neuropathy type 6|not provided|Hereditary sensory and autonomic neuropathy type 6",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}