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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: 2-195884788-T-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=195884788&ref=T&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 195884788,
"ref": "T",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000312428.11",
"consequences": [
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 65,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "NM_018897.3",
"protein_id": "NP_061720.2",
"transcript_support_level": null,
"aa_start": 1854,
"aa_end": null,
"aa_length": 4024,
"cds_start": 5560,
"cds_end": null,
"cds_length": 12075,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 12419,
"mane_select": "ENST00000312428.11",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 65,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "ENST00000312428.11",
"protein_id": "ENSP00000311273.6",
"transcript_support_level": 1,
"aa_start": 1854,
"aa_end": null,
"aa_length": 4024,
"cds_start": 5560,
"cds_end": null,
"cds_length": 12075,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 12419,
"mane_select": "NM_018897.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 34,
"exon_rank_end": null,
"exon_count": 64,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5440A>T",
"hgvs_p": "p.Ile1814Phe",
"transcript": "XM_011511488.4",
"protein_id": "XP_011509790.1",
"transcript_support_level": null,
"aa_start": 1814,
"aa_end": null,
"aa_length": 3984,
"cds_start": 5440,
"cds_end": null,
"cds_length": 11955,
"cdna_start": 5566,
"cdna_end": null,
"cdna_length": 12299,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 34,
"exon_rank_end": null,
"exon_count": 64,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5422A>T",
"hgvs_p": "p.Ile1808Phe",
"transcript": "XM_011511489.3",
"protein_id": "XP_011509791.1",
"transcript_support_level": null,
"aa_start": 1808,
"aa_end": null,
"aa_length": 3978,
"cds_start": 5422,
"cds_end": null,
"cds_length": 11937,
"cdna_start": 5623,
"cdna_end": null,
"cdna_length": 12356,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 34,
"exon_rank_end": null,
"exon_count": 64,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5287A>T",
"hgvs_p": "p.Ile1763Phe",
"transcript": "XM_017004504.3",
"protein_id": "XP_016859993.1",
"transcript_support_level": null,
"aa_start": 1763,
"aa_end": null,
"aa_length": 3933,
"cds_start": 5287,
"cds_end": null,
"cds_length": 11802,
"cdna_start": 5413,
"cdna_end": null,
"cdna_length": 12146,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 48,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "XM_011511491.4",
"protein_id": "XP_011509793.1",
"transcript_support_level": null,
"aa_start": 1854,
"aa_end": null,
"aa_length": 3004,
"cds_start": 5560,
"cds_end": null,
"cds_length": 9015,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 9229,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 49,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "XM_011511492.4",
"protein_id": "XP_011509794.1",
"transcript_support_level": null,
"aa_start": 1854,
"aa_end": null,
"aa_length": 2995,
"cds_start": 5560,
"cds_end": null,
"cds_length": 8988,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 9188,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 47,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "XM_011511493.4",
"protein_id": "XP_011509795.1",
"transcript_support_level": null,
"aa_start": 1854,
"aa_end": null,
"aa_length": 2942,
"cds_start": 5560,
"cds_end": null,
"cds_length": 8829,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 9062,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 47,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "XM_011511494.4",
"protein_id": "XP_011509796.1",
"transcript_support_level": null,
"aa_start": 1854,
"aa_end": null,
"aa_length": 2929,
"cds_start": 5560,
"cds_end": null,
"cds_length": 8790,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 8999,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "F",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 35,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe",
"transcript": "XM_011511495.4",
"protein_id": "XP_011509797.1",
"transcript_support_level": null,
"aa_start": 1854,
"aa_end": null,
"aa_length": 2812,
"cds_start": 5560,
"cds_end": null,
"cds_length": 8439,
"cdna_start": 5686,
"cdna_end": null,
"cdna_length": 8661,
"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": 35,
"exon_rank_end": null,
"exon_count": 48,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "n.5686A>T",
"hgvs_p": null,
"transcript": "XR_922968.4",
"protein_id": null,
"transcript_support_level": null,
"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": 9078,
"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": 64,
"intron_rank": 34,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.5538+1353A>T",
"hgvs_p": null,
"transcript": "XM_011511490.4",
"protein_id": "XP_011509792.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 3949,
"cds_start": -4,
"cds_end": null,
"cds_length": 11850,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 12194,
"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": 32,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"hgvs_c": "c.-41-28A>T",
"hgvs_p": null,
"transcript": "XM_011511497.3",
"protein_id": "XP_011509799.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 2148,
"cds_start": -4,
"cds_end": null,
"cds_length": 6447,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 6790,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "DNAH7",
"gene_hgnc_id": 18661,
"dbsnp": "rs62623593",
"frequency_reference_population": 6.8471485e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84715e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.5732620358467102,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.019999999552965164,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.153,
"revel_prediction": "Benign",
"alphamissense_score": 0.5333,
"alphamissense_prediction": "Uncertain_significance",
"bayesdelnoaf_score": -0.36,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 2.585,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.02,
"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": "Uncertain_significance",
"acmg_criteria": "PM2",
"acmg_by_gene": [
{
"score": 2,
"benign_score": 0,
"pathogenic_score": 2,
"criteria": [
"PM2"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000312428.11",
"gene_symbol": "DNAH7",
"hgnc_id": 18661,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.5560A>T",
"hgvs_p": "p.Ile1854Phe"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}