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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: 10-32017352-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=10&pos=32017352&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "10",
"pos": 32017352,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_004521.3",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2552G>A",
"hgvs_p": "p.Arg851His",
"transcript": "NM_004521.3",
"protein_id": "NP_004512.1",
"transcript_support_level": null,
"aa_start": 851,
"aa_end": null,
"aa_length": 963,
"cds_start": 2552,
"cds_end": null,
"cds_length": 2892,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000302418.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_004521.3"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2552G>A",
"hgvs_p": "p.Arg851His",
"transcript": "ENST00000302418.5",
"protein_id": "ENSP00000307078.4",
"transcript_support_level": 1,
"aa_start": 851,
"aa_end": null,
"aa_length": 963,
"cds_start": 2552,
"cds_end": null,
"cds_length": 2892,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_004521.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000302418.5"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2837G>A",
"hgvs_p": "p.Arg946His",
"transcript": "ENST00000861449.1",
"protein_id": "ENSP00000531508.1",
"transcript_support_level": null,
"aa_start": 946,
"aa_end": null,
"aa_length": 1058,
"cds_start": 2837,
"cds_end": null,
"cds_length": 3177,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000861449.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2549G>A",
"hgvs_p": "p.Arg850His",
"transcript": "ENST00000861448.1",
"protein_id": "ENSP00000531507.1",
"transcript_support_level": null,
"aa_start": 850,
"aa_end": null,
"aa_length": 962,
"cds_start": 2549,
"cds_end": null,
"cds_length": 2889,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000861448.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2447G>A",
"hgvs_p": "p.Arg816His",
"transcript": "ENST00000948543.1",
"protein_id": "ENSP00000618602.1",
"transcript_support_level": null,
"aa_start": 816,
"aa_end": null,
"aa_length": 928,
"cds_start": 2447,
"cds_end": null,
"cds_length": 2787,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000948543.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2408G>A",
"hgvs_p": "p.Arg803His",
"transcript": "ENST00000948544.1",
"protein_id": "ENSP00000618603.1",
"transcript_support_level": null,
"aa_start": 803,
"aa_end": null,
"aa_length": 915,
"cds_start": 2408,
"cds_end": null,
"cds_length": 2748,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000948544.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2552G>A",
"hgvs_p": "p.Arg851His",
"transcript": "XM_047425202.1",
"protein_id": "XP_047281158.1",
"transcript_support_level": null,
"aa_start": 851,
"aa_end": null,
"aa_length": 963,
"cds_start": 2552,
"cds_end": null,
"cds_length": 2892,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425202.1"
},
{
"aa_ref": "R",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "c.2270G>A",
"hgvs_p": "p.Arg757His",
"transcript": "XM_047425203.1",
"protein_id": "XP_047281159.1",
"transcript_support_level": null,
"aa_start": 757,
"aa_end": null,
"aa_length": 869,
"cds_start": 2270,
"cds_end": null,
"cds_length": 2610,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425203.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"hgvs_c": "n.349G>A",
"hgvs_p": null,
"transcript": "ENST00000493889.1",
"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": "ENST00000493889.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "LOC107984219",
"gene_hgnc_id": null,
"hgvs_c": "n.5354-674C>T",
"hgvs_p": null,
"transcript": "XR_001747415.2",
"protein_id": null,
"transcript_support_level": null,
"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": "XR_001747415.2"
}
],
"gene_symbol": "KIF5B",
"gene_hgnc_id": 6324,
"dbsnp": "rs200746362",
"frequency_reference_population": 0.000009920918,
"hom_count_reference_population": 0,
"allele_count_reference_population": 16,
"gnomad_exomes_af": 0.00000821584,
"gnomad_genomes_af": 0.0000262881,
"gnomad_exomes_ac": 12,
"gnomad_genomes_ac": 4,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.5274725556373596,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.09000000357627869,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.459,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.9293,
"alphamissense_prediction": "Pathogenic",
"bayesdelnoaf_score": 0.05,
"bayesdelnoaf_prediction": "Uncertain_significance",
"phylop100way_score": 7.834,
"phylop100way_prediction": "Pathogenic",
"spliceai_max_score": 0.09,
"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": "BS2",
"acmg_by_gene": [
{
"score": -4,
"benign_score": 4,
"pathogenic_score": 0,
"criteria": [
"BS2"
],
"verdict": "Likely_benign",
"transcript": "NM_004521.3",
"gene_symbol": "KIF5B",
"hgnc_id": 6324,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.2552G>A",
"hgvs_p": "p.Arg851His"
},
{
"score": 2,
"benign_score": 0,
"pathogenic_score": 2,
"criteria": [
"PM2"
],
"verdict": "Uncertain_significance",
"transcript": "XR_001747415.2",
"gene_symbol": "LOC107984219",
"hgnc_id": null,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.5354-674C>T",
"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
}