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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: 6-31590014-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=31590014&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 4,
"criteria": [
"PM2",
"BP4_Strong"
],
"effects": [
"synonymous_variant"
],
"gene_symbol": "NCR3",
"hgnc_id": 19077,
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"inheritance_mode": "AR",
"pathogenic_score": 2,
"score": -2,
"transcript": "NM_147130.3",
"verdict": "Likely_benign"
}
],
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_score": -2,
"allele_count_reference_population": 0,
"alphamissense_prediction": null,
"alphamissense_score": null,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.85,
"chr": "6",
"clinvar_classification": "",
"clinvar_disease": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"computational_prediction_selected": "Benign",
"computational_score_selected": -0.8500000238418579,
"computational_source_selected": "BayesDel_noAF",
"consequences": [
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 201,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1063,
"cdna_start": 441,
"cds_end": null,
"cds_length": 606,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "NM_147130.3",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000340027.10",
"protein_coding": true,
"protein_id": "NP_667341.1",
"strand": false,
"transcript": "NM_147130.3",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 201,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 1063,
"cdna_start": 441,
"cds_end": null,
"cds_length": 606,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000340027.10",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_147130.3",
"protein_coding": true,
"protein_id": "ENSP00000342156.5",
"strand": false,
"transcript": "ENST00000340027.10",
"transcript_support_level": 1
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 190,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 875,
"cdna_start": 420,
"cds_end": null,
"cds_length": 573,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000376072.7",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000365240.3",
"strand": false,
"transcript": "ENST00000376072.7",
"transcript_support_level": 1
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 177,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1097,
"cdna_start": 420,
"cds_end": null,
"cds_length": 534,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000376073.8",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000365241.4",
"strand": false,
"transcript": "ENST00000376073.8",
"transcript_support_level": 1
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 201,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1000,
"cdna_start": 396,
"cds_end": null,
"cds_length": 606,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 5,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000934501.1",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000604560.1",
"strand": false,
"transcript": "ENST00000934501.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 201,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 887,
"cdna_start": 271,
"cds_end": null,
"cds_length": 606,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 5,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000934502.1",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000604561.1",
"strand": false,
"transcript": "ENST00000934502.1",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 190,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 898,
"cdna_start": 441,
"cds_end": null,
"cds_length": 573,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "NM_001145467.2",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001138939.1",
"strand": false,
"transcript": "NM_001145467.2",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 177,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1118,
"cdna_start": 441,
"cds_end": null,
"cds_length": 534,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "NM_001145466.2",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001138938.1",
"strand": false,
"transcript": "NM_001145466.2",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 165,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 541,
"cdna_start": 184,
"cds_end": null,
"cds_length": 498,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 5,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000376071.4",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000365239.4",
"strand": false,
"transcript": "ENST00000376071.4",
"transcript_support_level": 5
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 201,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 973,
"cdna_start": 351,
"cds_end": null,
"cds_length": 606,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 5,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "XM_006715049.4",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_006715112.1",
"strand": false,
"transcript": "XM_006715049.4",
"transcript_support_level": null
},
{
"aa_alt": "S",
"aa_end": null,
"aa_length": 176,
"aa_ref": "S",
"aa_start": 52,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 988,
"cdna_start": 441,
"cds_end": null,
"cds_length": 531,
"cds_start": 156,
"consequences": [
"synonymous_variant"
],
"exon_count": 5,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "XM_011514459.3",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "c.156C>A",
"hgvs_p": "p.Ser52Ser",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011512761.1",
"strand": false,
"transcript": "XM_011514459.3",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "pseudogene",
"canonical": false,
"cdna_end": null,
"cdna_length": 893,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000491161.1",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "n.216C>A",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000491161.1",
"transcript_support_level": 5
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "pseudogene",
"canonical": false,
"cdna_end": null,
"cdna_length": 585,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 4,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000495600.5",
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"hgvs_c": "n.23-115C>A",
"hgvs_p": null,
"intron_rank": 1,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000495600.5",
"transcript_support_level": 5
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs11575839",
"effect": "synonymous_variant",
"frequency_reference_population": null,
"gene_hgnc_id": 19077,
"gene_symbol": "NCR3",
"gnomad_exomes_ac": null,
"gnomad_exomes_af": null,
"gnomad_exomes_homalt": null,
"gnomad_genomes_ac": null,
"gnomad_genomes_af": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": null,
"phenotype_combined": null,
"phylop100way_prediction": "Benign",
"phylop100way_score": -1.984,
"pos": 31590014,
"ref": "G",
"revel_prediction": null,
"revel_score": null,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_147130.3"
}
]
}