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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: 5-6739851-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=5&pos=6739851&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 4,
"criteria": [
"BS2"
],
"effects": [
"missense_variant",
"splice_region_variant"
],
"gene_symbol": "TENT4A",
"hgnc_id": 16705,
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"inheritance_mode": "AD",
"pathogenic_score": 0,
"score": -4,
"transcript": "NM_006999.6",
"verdict": "Likely_benign"
}
],
"acmg_classification": "Likely_benign",
"acmg_criteria": "BS2",
"acmg_score": -4,
"allele_count_reference_population": 6,
"alphamissense_prediction": null,
"alphamissense_score": 0.5622,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.16,
"chr": "5",
"clinvar_classification": "Uncertain significance",
"clinvar_disease": "not specified",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"computational_prediction_selected": "Uncertain_significance",
"computational_score_selected": 0.5423839092254639,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 792,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5030,
"cdna_start": 1559,
"cds_end": null,
"cds_length": 2379,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "NM_006999.6",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000230859.8",
"protein_coding": true,
"protein_id": "NP_008930.2",
"strand": true,
"transcript": "NM_006999.6",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 792,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 5030,
"cdna_start": 1559,
"cds_end": null,
"cds_length": 2379,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000230859.8",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_006999.6",
"protein_coding": true,
"protein_id": "ENSP00000230859.7",
"strand": true,
"transcript": "ENST00000230859.8",
"transcript_support_level": 1
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 791,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5027,
"cdna_start": 1559,
"cds_end": null,
"cds_length": 2376,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "NM_001171805.3",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001165276.2",
"strand": true,
"transcript": "NM_001171805.3",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 791,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5168,
"cdna_start": 1700,
"cds_end": null,
"cds_length": 2376,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000932304.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000602363.1",
"strand": true,
"transcript": "ENST00000932304.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 749,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4905,
"cdna_start": 1562,
"cds_end": null,
"cds_length": 2250,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 12,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000932305.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000602364.1",
"strand": true,
"transcript": "ENST00000932305.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 737,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4684,
"cdna_start": 1378,
"cds_end": null,
"cds_length": 2214,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 12,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000955123.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000625182.1",
"strand": true,
"transcript": "ENST00000955123.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 713,
"aa_ref": "T",
"aa_start": 336,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4243,
"cdna_start": 1012,
"cds_end": null,
"cds_length": 2142,
"cds_start": 1007,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 11,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000955124.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.1007C>T",
"hgvs_p": "p.Thr336Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000625183.1",
"strand": true,
"transcript": "ENST00000955124.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 542,
"aa_ref": "T",
"aa_start": 86,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1902,
"cdna_start": 445,
"cds_end": null,
"cds_length": 1629,
"cds_start": 257,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000631941.2",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.257C>T",
"hgvs_p": "p.Thr86Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000488642.1",
"strand": true,
"transcript": "ENST00000631941.2",
"transcript_support_level": 5
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 542,
"aa_ref": "T",
"aa_start": 86,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6994,
"cdna_start": 3523,
"cds_end": null,
"cds_length": 1629,
"cds_start": 257,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "XM_047416664.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.257C>T",
"hgvs_p": "p.Thr86Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047272620.1",
"strand": true,
"transcript": "XM_047416664.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 542,
"aa_ref": "T",
"aa_start": 86,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4251,
"cdna_start": 780,
"cds_end": null,
"cds_length": 1629,
"cds_start": 257,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "XM_047416665.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.257C>T",
"hgvs_p": "p.Thr86Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047272621.1",
"strand": true,
"transcript": "XM_047416665.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 542,
"aa_ref": "T",
"aa_start": 86,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6223,
"cdna_start": 2752,
"cds_end": null,
"cds_length": 1629,
"cds_start": 257,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "XM_047416666.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.257C>T",
"hgvs_p": "p.Thr86Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047272622.1",
"strand": true,
"transcript": "XM_047416666.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 533,
"aa_ref": "T",
"aa_start": 77,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 15344,
"cdna_start": 11873,
"cds_end": null,
"cds_length": 1602,
"cds_start": 230,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "XM_017008988.3",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.230C>T",
"hgvs_p": "p.Thr77Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_016864477.1",
"strand": true,
"transcript": "XM_017008988.3",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 533,
"aa_ref": "T",
"aa_start": 77,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4135,
"cdna_start": 664,
"cds_end": null,
"cds_length": 1602,
"cds_start": 230,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 14,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "XM_047416667.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.230C>T",
"hgvs_p": "p.Thr77Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047272623.1",
"strand": true,
"transcript": "XM_047416667.1",
"transcript_support_level": null
},
{
"aa_alt": "M",
"aa_end": null,
"aa_length": 532,
"aa_ref": "T",
"aa_start": 77,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 15341,
"cdna_start": 11873,
"cds_end": null,
"cds_length": 1599,
"cds_start": 230,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_count": 13,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "XM_047416668.1",
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"hgvs_c": "c.230C>T",
"hgvs_p": "p.Thr77Met",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047272624.1",
"strand": true,
"transcript": "XM_047416668.1",
"transcript_support_level": null
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": "Benign",
"dbscsnv_ada_score": 0.0538431027694451,
"dbsnp": "rs753888655",
"effect": "missense_variant,splice_region_variant",
"frequency_reference_population": 0.0000041063436,
"gene_hgnc_id": 16705,
"gene_symbol": "TENT4A",
"gnomad_exomes_ac": 6,
"gnomad_exomes_af": 0.00000410634,
"gnomad_exomes_homalt": 0,
"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": "Uncertain significance",
"phenotype_combined": "not specified",
"phylop100way_prediction": "Uncertain_significance",
"phylop100way_score": 6.993,
"pos": 6739851,
"ref": "C",
"revel_prediction": "Benign",
"revel_score": 0.224,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0.30000001192092896,
"splice_source_selected": "dbscSNV1_RF",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_006999.6"
}
]
}