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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: X-84065009-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=84065009&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 20,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BA1"
],
"effects": [
"missense_variant"
],
"gene_symbol": "RPS6KA6",
"hgnc_id": 10435,
"hgvs_c": "c.2074G>A",
"hgvs_p": "p.Asp692Asn",
"inheritance_mode": "",
"pathogenic_score": 0,
"score": -20,
"transcript": "NM_014496.5",
"verdict": "Benign"
}
],
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BA1",
"acmg_score": -20,
"allele_count_reference_population": 73220,
"alphamissense_prediction": null,
"alphamissense_score": 0.0661,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.94,
"chr": "X",
"clinvar_classification": "Benign",
"clinvar_disease": "not provided",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:2",
"computational_prediction_selected": "Benign",
"computational_score_selected": 0.0012203454971313477,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 745,
"aa_ref": "D",
"aa_start": 692,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8465,
"cdna_start": 2374,
"cds_end": null,
"cds_length": 2238,
"cds_start": 2074,
"consequences": [
"missense_variant"
],
"exon_count": 22,
"exon_rank": 21,
"exon_rank_end": null,
"feature": "NM_014496.5",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2074G>A",
"hgvs_p": "p.Asp692Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000262752.5",
"protein_coding": true,
"protein_id": "NP_055311.1",
"strand": false,
"transcript": "NM_014496.5",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 745,
"aa_ref": "D",
"aa_start": 692,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 8465,
"cdna_start": 2374,
"cds_end": null,
"cds_length": 2238,
"cds_start": 2074,
"consequences": [
"missense_variant"
],
"exon_count": 22,
"exon_rank": 21,
"exon_rank_end": null,
"feature": "ENST00000262752.5",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2074G>A",
"hgvs_p": "p.Asp692Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_014496.5",
"protein_coding": true,
"protein_id": "ENSP00000262752.2",
"strand": false,
"transcript": "ENST00000262752.5",
"transcript_support_level": 1
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 745,
"aa_ref": "D",
"aa_start": 692,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8427,
"cdna_start": 2332,
"cds_end": null,
"cds_length": 2238,
"cds_start": 2074,
"consequences": [
"missense_variant"
],
"exon_count": 24,
"exon_rank": 23,
"exon_rank_end": null,
"feature": "NM_001330512.1",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2074G>A",
"hgvs_p": "p.Asp692Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001317441.1",
"strand": false,
"transcript": "NM_001330512.1",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 745,
"aa_ref": "D",
"aa_start": 692,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8169,
"cdna_start": 2074,
"cds_end": null,
"cds_length": 2238,
"cds_start": 2074,
"consequences": [
"missense_variant"
],
"exon_count": 22,
"exon_rank": 21,
"exon_rank_end": null,
"feature": "ENST00000620340.4",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2074G>A",
"hgvs_p": "p.Asp692Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000483896.1",
"strand": false,
"transcript": "ENST00000620340.4",
"transcript_support_level": 5
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 732,
"aa_ref": "D",
"aa_start": 679,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5413,
"cdna_start": 2360,
"cds_end": null,
"cds_length": 2199,
"cds_start": 2035,
"consequences": [
"missense_variant"
],
"exon_count": 22,
"exon_rank": 21,
"exon_rank_end": null,
"feature": "ENST00000911420.1",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2035G>A",
"hgvs_p": "p.Asp679Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581479.1",
"strand": false,
"transcript": "ENST00000911420.1",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 576,
"aa_ref": "D",
"aa_start": 523,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5197,
"cdna_start": 2144,
"cds_end": null,
"cds_length": 1731,
"cds_start": 1567,
"consequences": [
"missense_variant"
],
"exon_count": 16,
"exon_rank": 15,
"exon_rank_end": null,
"feature": "ENST00000911419.1",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.1567G>A",
"hgvs_p": "p.Asp523Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581478.1",
"strand": false,
"transcript": "ENST00000911419.1",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 762,
"aa_ref": "D",
"aa_start": 709,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9375,
"cdna_start": 3280,
"cds_end": null,
"cds_length": 2289,
"cds_start": 2125,
"consequences": [
"missense_variant"
],
"exon_count": 22,
"exon_rank": 21,
"exon_rank_end": null,
"feature": "XM_017029423.2",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2125G>A",
"hgvs_p": "p.Asp709Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_016884912.1",
"strand": false,
"transcript": "XM_017029423.2",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 762,
"aa_ref": "D",
"aa_start": 709,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9379,
"cdna_start": 3284,
"cds_end": null,
"cds_length": 2289,
"cds_start": 2125,
"consequences": [
"missense_variant"
],
"exon_count": 24,
"exon_rank": 23,
"exon_rank_end": null,
"feature": "XM_017029424.2",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2125G>A",
"hgvs_p": "p.Asp709Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_016884913.1",
"strand": false,
"transcript": "XM_017029424.2",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 762,
"aa_ref": "D",
"aa_start": 709,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 9283,
"cdna_start": 3188,
"cds_end": null,
"cds_length": 2289,
"cds_start": 2125,
"consequences": [
"missense_variant"
],
"exon_count": 23,
"exon_rank": 22,
"exon_rank_end": null,
"feature": "XM_017029425.2",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2125G>A",
"hgvs_p": "p.Asp709Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_016884914.1",
"strand": false,
"transcript": "XM_017029425.2",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 745,
"aa_ref": "D",
"aa_start": 692,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8787,
"cdna_start": 2692,
"cds_end": null,
"cds_length": 2238,
"cds_start": 2074,
"consequences": [
"missense_variant"
],
"exon_count": 25,
"exon_rank": 24,
"exon_rank_end": null,
"feature": "XM_011530917.3",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.2074G>A",
"hgvs_p": "p.Asp692Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011529219.1",
"strand": false,
"transcript": "XM_011530917.3",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 713,
"aa_ref": "D",
"aa_start": 660,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8565,
"cdna_start": 2470,
"cds_end": null,
"cds_length": 2142,
"cds_start": 1978,
"consequences": [
"missense_variant"
],
"exon_count": 23,
"exon_rank": 22,
"exon_rank_end": null,
"feature": "XM_047441996.1",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.1978G>A",
"hgvs_p": "p.Asp660Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047297952.1",
"strand": false,
"transcript": "XM_047441996.1",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 713,
"aa_ref": "D",
"aa_start": 660,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8314,
"cdna_start": 2219,
"cds_end": null,
"cds_length": 2142,
"cds_start": 1978,
"consequences": [
"missense_variant"
],
"exon_count": 22,
"exon_rank": 21,
"exon_rank_end": null,
"feature": "XM_047441997.1",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.1978G>A",
"hgvs_p": "p.Asp660Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_047297953.1",
"strand": false,
"transcript": "XM_047441997.1",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 642,
"aa_ref": "D",
"aa_start": 589,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8617,
"cdna_start": 2522,
"cds_end": null,
"cds_length": 1929,
"cds_start": 1765,
"consequences": [
"missense_variant"
],
"exon_count": 23,
"exon_rank": 22,
"exon_rank_end": null,
"feature": "XM_011530919.3",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.1765G>A",
"hgvs_p": "p.Asp589Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011529221.1",
"strand": false,
"transcript": "XM_011530919.3",
"transcript_support_level": null
},
{
"aa_alt": "N",
"aa_end": null,
"aa_length": 624,
"aa_ref": "D",
"aa_start": 571,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8154,
"cdna_start": 2059,
"cds_end": null,
"cds_length": 1875,
"cds_start": 1711,
"consequences": [
"missense_variant"
],
"exon_count": 21,
"exon_rank": 20,
"exon_rank_end": null,
"feature": "XM_011530920.3",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.1711G>A",
"hgvs_p": "p.Asp571Asn",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_011529222.1",
"strand": false,
"transcript": "XM_011530920.3",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 698,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 8581,
"cdna_start": null,
"cds_end": null,
"cds_length": 2097,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 21,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000911418.1",
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"hgvs_c": "c.1972-607G>A",
"hgvs_p": null,
"intron_rank": 20,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581477.1",
"strand": false,
"transcript": "ENST00000911418.1",
"transcript_support_level": null
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs6616890",
"effect": "missense_variant",
"frequency_reference_population": 0.060819913,
"gene_hgnc_id": 10435,
"gene_symbol": "RPS6KA6",
"gnomad_exomes_ac": 66389,
"gnomad_exomes_af": 0.0607283,
"gnomad_exomes_homalt": 1899,
"gnomad_genomes_ac": 6831,
"gnomad_genomes_af": 0.0617246,
"gnomad_genomes_homalt": 229,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 26428,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": "Benign",
"phenotype_combined": "not provided",
"phylop100way_prediction": "Benign",
"phylop100way_score": 3.362,
"pos": 84065009,
"ref": "C",
"revel_prediction": "Benign",
"revel_score": 0.092,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0.03999999910593033,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0.04,
"transcript": "NM_014496.5"
}
]
}