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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: 10-98388441-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=10&pos=98388441&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "10",
"pos": 98388441,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_032709.3",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1360G>A",
"hgvs_p": "p.Val454Ile",
"transcript": "NM_032709.3",
"protein_id": "NP_116098.2",
"transcript_support_level": null,
"aa_start": 454,
"aa_end": null,
"aa_length": 581,
"cds_start": 1360,
"cds_end": null,
"cds_length": 1746,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000370575.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_032709.3"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1360G>A",
"hgvs_p": "p.Val454Ile",
"transcript": "ENST00000370575.5",
"protein_id": "ENSP00000359607.4",
"transcript_support_level": 1,
"aa_start": 454,
"aa_end": null,
"aa_length": 581,
"cds_start": 1360,
"cds_end": null,
"cds_length": 1746,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_032709.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000370575.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": 12,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "n.2334-1134G>A",
"hgvs_p": null,
"transcript": "ENST00000483923.5",
"protein_id": null,
"transcript_support_level": 1,
"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": "ENST00000483923.5"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1504G>A",
"hgvs_p": "p.Val502Ile",
"transcript": "ENST00000906254.1",
"protein_id": "ENSP00000576313.1",
"transcript_support_level": null,
"aa_start": 502,
"aa_end": null,
"aa_length": 629,
"cds_start": 1504,
"cds_end": null,
"cds_length": 1890,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000906254.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1501G>A",
"hgvs_p": "p.Val501Ile",
"transcript": "ENST00000965723.1",
"protein_id": "ENSP00000635782.1",
"transcript_support_level": null,
"aa_start": 501,
"aa_end": null,
"aa_length": 628,
"cds_start": 1501,
"cds_end": null,
"cds_length": 1887,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000965723.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1483G>A",
"hgvs_p": "p.Val495Ile",
"transcript": "ENST00000965722.1",
"protein_id": "ENSP00000635781.1",
"transcript_support_level": null,
"aa_start": 495,
"aa_end": null,
"aa_length": 622,
"cds_start": 1483,
"cds_end": null,
"cds_length": 1869,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000965722.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1474G>A",
"hgvs_p": "p.Val492Ile",
"transcript": "ENST00000906252.1",
"protein_id": "ENSP00000576311.1",
"transcript_support_level": null,
"aa_start": 492,
"aa_end": null,
"aa_length": 619,
"cds_start": 1474,
"cds_end": null,
"cds_length": 1860,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000906252.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1225G>A",
"hgvs_p": "p.Val409Ile",
"transcript": "ENST00000906253.1",
"protein_id": "ENSP00000576312.1",
"transcript_support_level": null,
"aa_start": 409,
"aa_end": null,
"aa_length": 536,
"cds_start": 1225,
"cds_end": null,
"cds_length": 1611,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000906253.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1576G>A",
"hgvs_p": "p.Val526Ile",
"transcript": "XM_047425881.1",
"protein_id": "XP_047281837.1",
"transcript_support_level": null,
"aa_start": 526,
"aa_end": null,
"aa_length": 653,
"cds_start": 1576,
"cds_end": null,
"cds_length": 1962,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425881.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1474G>A",
"hgvs_p": "p.Val492Ile",
"transcript": "XM_047425882.1",
"protein_id": "XP_047281838.1",
"transcript_support_level": null,
"aa_start": 492,
"aa_end": null,
"aa_length": 619,
"cds_start": 1474,
"cds_end": null,
"cds_length": 1860,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425882.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1462G>A",
"hgvs_p": "p.Val488Ile",
"transcript": "XM_011540293.3",
"protein_id": "XP_011538595.1",
"transcript_support_level": null,
"aa_start": 488,
"aa_end": null,
"aa_length": 615,
"cds_start": 1462,
"cds_end": null,
"cds_length": 1848,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011540293.3"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1474G>A",
"hgvs_p": "p.Val492Ile",
"transcript": "XM_047425883.1",
"protein_id": "XP_047281839.1",
"transcript_support_level": null,
"aa_start": 492,
"aa_end": null,
"aa_length": 598,
"cds_start": 1474,
"cds_end": null,
"cds_length": 1797,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425883.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1462G>A",
"hgvs_p": "p.Val488Ile",
"transcript": "XM_047425884.1",
"protein_id": "XP_047281840.1",
"transcript_support_level": null,
"aa_start": 488,
"aa_end": null,
"aa_length": 594,
"cds_start": 1462,
"cds_end": null,
"cds_length": 1785,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425884.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1474G>A",
"hgvs_p": "p.Val492Ile",
"transcript": "XM_047425885.1",
"protein_id": "XP_047281841.1",
"transcript_support_level": null,
"aa_start": 492,
"aa_end": null,
"aa_length": 566,
"cds_start": 1474,
"cds_end": null,
"cds_length": 1701,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425885.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1462G>A",
"hgvs_p": "p.Val488Ile",
"transcript": "XM_047425886.1",
"protein_id": "XP_047281842.1",
"transcript_support_level": null,
"aa_start": 488,
"aa_end": null,
"aa_length": 562,
"cds_start": 1462,
"cds_end": null,
"cds_length": 1689,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425886.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1360G>A",
"hgvs_p": "p.Val454Ile",
"transcript": "XM_017016835.2",
"protein_id": "XP_016872324.1",
"transcript_support_level": null,
"aa_start": 454,
"aa_end": null,
"aa_length": 560,
"cds_start": 1360,
"cds_end": null,
"cds_length": 1683,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017016835.2"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1111G>A",
"hgvs_p": "p.Val371Ile",
"transcript": "XM_047425887.1",
"protein_id": "XP_047281843.1",
"transcript_support_level": null,
"aa_start": 371,
"aa_end": null,
"aa_length": 498,
"cds_start": 1111,
"cds_end": null,
"cds_length": 1497,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425887.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.1111G>A",
"hgvs_p": "p.Val371Ile",
"transcript": "XM_047425888.1",
"protein_id": "XP_047281844.1",
"transcript_support_level": null,
"aa_start": 371,
"aa_end": null,
"aa_length": 498,
"cds_start": 1111,
"cds_end": null,
"cds_length": 1497,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047425888.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.997G>A",
"hgvs_p": "p.Val333Ile",
"transcript": "XM_017016839.3",
"protein_id": "XP_016872328.1",
"transcript_support_level": null,
"aa_start": 333,
"aa_end": null,
"aa_length": 460,
"cds_start": 997,
"cds_end": null,
"cds_length": 1383,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017016839.3"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.997G>A",
"hgvs_p": "p.Val333Ile",
"transcript": "XM_017016840.2",
"protein_id": "XP_016872329.1",
"transcript_support_level": null,
"aa_start": 333,
"aa_end": null,
"aa_length": 460,
"cds_start": 997,
"cds_end": null,
"cds_length": 1383,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017016840.2"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.997G>A",
"hgvs_p": "p.Val333Ile",
"transcript": "XM_017016841.2",
"protein_id": "XP_016872330.1",
"transcript_support_level": null,
"aa_start": 333,
"aa_end": null,
"aa_length": 460,
"cds_start": 997,
"cds_end": null,
"cds_length": 1383,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017016841.2"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"hgvs_c": "c.604G>A",
"hgvs_p": "p.Val202Ile",
"transcript": "XM_047425891.1",
"protein_id": "XP_047281847.1",
"transcript_support_level": null,
"aa_start": 202,
"aa_end": null,
"aa_length": 329,
"cds_start": 604,
"cds_end": null,
"cds_length": 990,
"cdna_start": null,
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{
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"protein_coding": true,
"strand": false,
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],
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"feature": "XM_011540301.3"
},
{
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"canonical": false,
"protein_coding": true,
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"consequences": [
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],
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"gene_symbol": "PYROXD2",
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"transcript": "XM_047425890.1",
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},
{
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"protein_coding": false,
"strand": false,
"consequences": [
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],
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"biotype": "pseudogene",
"feature": "XR_007062008.1"
},
{
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"protein_coding": false,
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"intron_variant"
],
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"gene_symbol": "PYROXD2",
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},
{
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"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
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"gene_symbol": "PYROXD2",
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"feature": "XM_047425889.1"
},
{
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"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
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"exon_count": 3,
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"gene_symbol": "PYROXD2",
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"hgvs_c": "n.-5G>A",
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"transcript": "ENST00000464808.1",
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"biotype": "pseudogene",
"feature": "ENST00000464808.1"
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],
"gene_symbol": "PYROXD2",
"gene_hgnc_id": 23517,
"dbsnp": "rs768726700",
"frequency_reference_population": 0.000044631455,
"hom_count_reference_population": 0,
"allele_count_reference_population": 72,
"gnomad_exomes_af": 0.0000458424,
"gnomad_genomes_af": 0.0000329633,
"gnomad_exomes_ac": 67,
"gnomad_genomes_ac": 5,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.037097662687301636,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.28999999165534973,
"splice_prediction_selected": "Uncertain_significance",
"splice_source_selected": "max_spliceai",
"revel_score": 0.041,
"revel_prediction": "Benign",
"alphamissense_score": 0.0775,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.67,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.967,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.29,
"spliceai_max_prediction": "Uncertain_significance",
"dbscsnv_ada_score": null,
"dbscsnv_ada_prediction": null,
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP6_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP6_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_032709.3",
"gene_symbol": "PYROXD2",
"hgnc_id": 23517,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1360G>A",
"hgvs_p": "p.Val454Ile"
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Likely benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Likely benign",
"custom_annotations": null
}
],
"message": null
}