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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-154428787-TGGC-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=154428787&ref=TGGC&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 154428787,
"ref": "TGGC",
"alt": "T",
"effect": "disruptive_inframe_deletion",
"transcript": "NM_001183.6",
"consequences": [
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "NM_001183.6",
"protein_id": "NP_001174.2",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 470,
"cds_start": 114,
"cds_end": null,
"cds_length": 1413,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000369762.7",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001183.6"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000369762.7",
"protein_id": "ENSP00000358777.2",
"transcript_support_level": 1,
"aa_start": 38,
"aa_end": null,
"aa_length": 470,
"cds_start": 114,
"cds_end": null,
"cds_length": 1413,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_001183.6",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000369762.7"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000945275.1",
"protein_id": "ENSP00000615334.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 494,
"cds_start": 114,
"cds_end": null,
"cds_length": 1485,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000945275.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000862438.1",
"protein_id": "ENSP00000532497.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 487,
"cds_start": 114,
"cds_end": null,
"cds_length": 1464,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000862438.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000945278.1",
"protein_id": "ENSP00000615337.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 480,
"cds_start": 114,
"cds_end": null,
"cds_length": 1443,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000945278.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000862435.1",
"protein_id": "ENSP00000532494.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 468,
"cds_start": 114,
"cds_end": null,
"cds_length": 1407,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000862435.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000862436.1",
"protein_id": "ENSP00000532495.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 454,
"cds_start": 114,
"cds_end": null,
"cds_length": 1365,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000862436.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000862440.1",
"protein_id": "ENSP00000532499.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 445,
"cds_start": 114,
"cds_end": null,
"cds_length": 1338,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000862440.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000862437.1",
"protein_id": "ENSP00000532496.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 442,
"cds_start": 114,
"cds_end": null,
"cds_length": 1329,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000862437.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000945276.1",
"protein_id": "ENSP00000615335.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 417,
"cds_start": 114,
"cds_end": null,
"cds_length": 1254,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000945276.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000945277.1",
"protein_id": "ENSP00000615336.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 348,
"cds_start": 114,
"cds_end": null,
"cds_length": 1047,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000945277.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000862439.1",
"protein_id": "ENSP00000532498.1",
"transcript_support_level": null,
"aa_start": 38,
"aa_end": null,
"aa_length": 323,
"cds_start": 114,
"cds_end": null,
"cds_length": 972,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000862439.1"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000422890.5",
"protein_id": "ENSP00000398511.1",
"transcript_support_level": 5,
"aa_start": 38,
"aa_end": null,
"aa_length": 272,
"cds_start": 114,
"cds_end": null,
"cds_length": 819,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000422890.5"
},
{
"aa_ref": "AA",
"aa_alt": "A",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"disruptive_inframe_deletion"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del",
"transcript": "ENST00000449556.5",
"protein_id": "ENSP00000392375.1",
"transcript_support_level": 5,
"aa_start": 38,
"aa_end": null,
"aa_length": 229,
"cds_start": 114,
"cds_end": null,
"cds_length": 690,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000449556.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.66_68delGGC",
"hgvs_p": null,
"transcript": "ENST00000429585.5",
"protein_id": "ENSP00000408470.1",
"transcript_support_level": 5,
"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": "nonsense_mediated_decay",
"feature": "ENST00000429585.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.114_116delGGC",
"hgvs_p": null,
"transcript": "ENST00000439372.6",
"protein_id": "ENSP00000408317.1",
"transcript_support_level": 4,
"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": "nonsense_mediated_decay",
"feature": "ENST00000439372.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.114_116delGGC",
"hgvs_p": null,
"transcript": "ENST00000446552.1",
"protein_id": "ENSP00000411209.1",
"transcript_support_level": 4,
"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": "nonsense_mediated_decay",
"feature": "ENST00000446552.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.108_110delGGC",
"hgvs_p": null,
"transcript": "ENST00000455205.5",
"protein_id": "ENSP00000396643.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000455205.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.114_116delGGC",
"hgvs_p": null,
"transcript": "ENST00000677342.1",
"protein_id": "ENSP00000503173.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000677342.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.114_116delGGC",
"hgvs_p": null,
"transcript": "ENST00000679241.1",
"protein_id": "ENSP00000503588.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000679241.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1-DT",
"gene_hgnc_id": 25138,
"hgvs_c": "n.-241_-239delGCC",
"hgvs_p": null,
"transcript": "ENST00000360656.5",
"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": "ENST00000360656.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.-57_-55delGGC",
"hgvs_p": null,
"transcript": "ENST00000491569.5",
"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": "retained_intron",
"feature": "ENST00000491569.5"
}
],
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"dbsnp": "rs781797236",
"frequency_reference_population": 0.0002925912,
"hom_count_reference_population": 54,
"allele_count_reference_population": 328,
"gnomad_exomes_af": 0.00031223,
"gnomad_genomes_af": 0.00011592,
"gnomad_exomes_ac": 315,
"gnomad_genomes_ac": 13,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": null,
"computational_prediction_selected": null,
"computational_source_selected": null,
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": null,
"bayesdelnoaf_prediction": null,
"phylop100way_score": 0.146,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0,
"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": -5,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP3,BS2",
"acmg_by_gene": [
{
"score": -5,
"benign_score": 5,
"pathogenic_score": 0,
"criteria": [
"BP3",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "NM_001183.6",
"gene_symbol": "ATP6AP1",
"hgnc_id": 868,
"effects": [
"disruptive_inframe_deletion"
],
"inheritance_mode": "XL,AR",
"hgvs_c": "c.114_116delGGC",
"hgvs_p": "p.Ala39del"
},
{
"score": -4,
"benign_score": 4,
"pathogenic_score": 0,
"criteria": [
"BS2"
],
"verdict": "Likely_benign",
"transcript": "ENST00000360656.5",
"gene_symbol": "ATP6AP1-DT",
"hgnc_id": 25138,
"effects": [
"upstream_gene_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.-241_-239delGCC",
"hgvs_p": null
}
],
"clinvar_disease": "ATP6AP1-related disorder,not provided",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "US:2",
"phenotype_combined": "not provided|ATP6AP1-related disorder",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}