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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-154435762-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=154435762&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 154435762,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_001183.6",
"consequences": [
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1284G>A",
"hgvs_p": "p.Met428Ile",
"transcript": "NM_001183.6",
"protein_id": "NP_001174.2",
"transcript_support_level": null,
"aa_start": 428,
"aa_end": null,
"aa_length": 470,
"cds_start": 1284,
"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": "M",
"aa_alt": "I",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1284G>A",
"hgvs_p": "p.Met428Ile",
"transcript": "ENST00000369762.7",
"protein_id": "ENSP00000358777.2",
"transcript_support_level": 1,
"aa_start": 428,
"aa_end": null,
"aa_length": 470,
"cds_start": 1284,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.900G>A",
"hgvs_p": "p.Met300Ile",
"transcript": "ENST00000619046.5",
"protein_id": "ENSP00000482243.2",
"transcript_support_level": 1,
"aa_start": 300,
"aa_end": null,
"aa_length": 342,
"cds_start": 900,
"cds_end": null,
"cds_length": 1029,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000619046.5"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1356G>A",
"hgvs_p": "p.Met452Ile",
"transcript": "ENST00000945275.1",
"protein_id": "ENSP00000615334.1",
"transcript_support_level": null,
"aa_start": 452,
"aa_end": null,
"aa_length": 494,
"cds_start": 1356,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1335G>A",
"hgvs_p": "p.Met445Ile",
"transcript": "ENST00000862438.1",
"protein_id": "ENSP00000532497.1",
"transcript_support_level": null,
"aa_start": 445,
"aa_end": null,
"aa_length": 487,
"cds_start": 1335,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1314G>A",
"hgvs_p": "p.Met438Ile",
"transcript": "ENST00000945278.1",
"protein_id": "ENSP00000615337.1",
"transcript_support_level": null,
"aa_start": 438,
"aa_end": null,
"aa_length": 480,
"cds_start": 1314,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1278G>A",
"hgvs_p": "p.Met426Ile",
"transcript": "ENST00000862435.1",
"protein_id": "ENSP00000532494.1",
"transcript_support_level": null,
"aa_start": 426,
"aa_end": null,
"aa_length": 468,
"cds_start": 1278,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1236G>A",
"hgvs_p": "p.Met412Ile",
"transcript": "ENST00000862436.1",
"protein_id": "ENSP00000532495.1",
"transcript_support_level": null,
"aa_start": 412,
"aa_end": null,
"aa_length": 454,
"cds_start": 1236,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1209G>A",
"hgvs_p": "p.Met403Ile",
"transcript": "ENST00000862440.1",
"protein_id": "ENSP00000532499.1",
"transcript_support_level": null,
"aa_start": 403,
"aa_end": null,
"aa_length": 445,
"cds_start": 1209,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1200G>A",
"hgvs_p": "p.Met400Ile",
"transcript": "ENST00000862437.1",
"protein_id": "ENSP00000532496.1",
"transcript_support_level": null,
"aa_start": 400,
"aa_end": null,
"aa_length": 442,
"cds_start": 1200,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.1125G>A",
"hgvs_p": "p.Met375Ile",
"transcript": "ENST00000945276.1",
"protein_id": "ENSP00000615335.1",
"transcript_support_level": null,
"aa_start": 375,
"aa_end": null,
"aa_length": 417,
"cds_start": 1125,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.918G>A",
"hgvs_p": "p.Met306Ile",
"transcript": "ENST00000945277.1",
"protein_id": "ENSP00000615336.1",
"transcript_support_level": null,
"aa_start": 306,
"aa_end": null,
"aa_length": 348,
"cds_start": 918,
"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": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "c.843G>A",
"hgvs_p": "p.Met281Ile",
"transcript": "ENST00000862439.1",
"protein_id": "ENSP00000532498.1",
"transcript_support_level": null,
"aa_start": 281,
"aa_end": null,
"aa_length": 323,
"cds_start": 843,
"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": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.*1246G>A",
"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": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.*3362G>A",
"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": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.1810G>A",
"hgvs_p": null,
"transcript": "ENST00000484908.2",
"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": "ENST00000484908.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.1326G>A",
"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"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.*1042G>A",
"hgvs_p": null,
"transcript": "ENST00000677332.1",
"protein_id": "ENSP00000502914.1",
"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": "ENST00000677332.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.*562G>A",
"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": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.1816G>A",
"hgvs_p": null,
"transcript": "ENST00000678317.1",
"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": "retained_intron",
"feature": "ENST00000678317.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.*350G>A",
"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": [
"3_prime_UTR_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"hgvs_c": "n.*1246G>A",
"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",
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{
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"strand": true,
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"exon_rank": 10,
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"exon_count": 10,
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"transcript": "ENST00000455205.5",
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{
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"gene_symbol": "ATP6AP1",
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"transcript": "ENST00000677332.1",
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{
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"protein_coding": false,
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"3_prime_UTR_variant"
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"exon_rank": 11,
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"exon_count": 11,
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"gene_symbol": "ATP6AP1",
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"transcript": "ENST00000677342.1",
"protein_id": "ENSP00000503173.1",
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"aa_end": null,
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"cds_end": null,
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"biotype": "nonsense_mediated_decay",
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{
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"protein_coding": false,
"strand": true,
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"3_prime_UTR_variant"
],
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"exon_count": 11,
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"gene_symbol": "ATP6AP1",
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"hgvs_c": "n.*350G>A",
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"transcript": "ENST00000679241.1",
"protein_id": "ENSP00000503588.1",
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"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
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"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000679241.1"
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],
"gene_symbol": "ATP6AP1",
"gene_hgnc_id": 868,
"dbsnp": "rs878853275",
"frequency_reference_population": null,
"hom_count_reference_population": 0,
"allele_count_reference_population": 0,
"gnomad_exomes_af": null,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.9117558002471924,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.57,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.9408,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.57,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 9.934,
"phylop100way_prediction": "Pathogenic",
"spliceai_max_score": 0.01,
"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": "Uncertain_significance",
"acmg_criteria": "PM2,PP3_Moderate,PP5",
"acmg_by_gene": [
{
"score": 5,
"benign_score": 0,
"pathogenic_score": 5,
"criteria": [
"PM2",
"PP3_Moderate",
"PP5"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001183.6",
"gene_symbol": "ATP6AP1",
"hgnc_id": 868,
"effects": [
"missense_variant"
],
"inheritance_mode": "XL,AR",
"hgvs_c": "c.1284G>A",
"hgvs_p": "p.Met428Ile"
}
],
"clinvar_disease": "Immunodeficiency 47",
"clinvar_classification": "Pathogenic",
"clinvar_review_status": "no assertion criteria provided",
"clinvar_submissions_summary": "null",
"phenotype_combined": "Immunodeficiency 47",
"pathogenicity_classification_combined": "Pathogenic",
"custom_annotations": null
}
],
"message": null
}