Plcxd1 (phosphatidylinositol-specific phospholipase C, X domain containing 1) - Rat Genome Database

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Gene: Plcxd1 (phosphatidylinositol-specific phospholipase C, X domain containing 1) Rattus norvegicus
Analyze
Symbol: Plcxd1
Name: phosphatidylinositol-specific phospholipase C, X domain containing 1
RGD ID: 1560935
Description: Predicted to enable phosphoric diester hydrolase activity. Predicted to be involved in lipid metabolic process. Orthologous to human PLCXD1 (phosphatidylinositol specific phospholipase C X domain containing 1); INTERACTS WITH bisphenol A; thioacetamide; trichloroethene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100909600; LOC304575; PI-PLC X domain-containing protein 1; PI-PLC X domain-containing protein 1-like; RGD1560935; similar to RIKEN cDNA A330045H12 gene
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81252,238,450 - 52,241,884 (-)NCBIGRCr8
mRatBN7.21246,578,917 - 46,582,181 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1246,579,225 - 46,582,392 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01252,674,837 - 52,678,047 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1252,641,222 - 52,676,608 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01254,377,827 - 54,380,971 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41246,726,350 - 46,729,517 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1248,134,745 - 48,137,955 (-)NCBICelera
Cytogenetic Map12q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15632090  


Genomics

Comparative Map Data
Plcxd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81252,238,450 - 52,241,884 (-)NCBIGRCr8
mRatBN7.21246,578,917 - 46,582,181 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1246,579,225 - 46,582,392 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01252,674,837 - 52,678,047 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1252,641,222 - 52,676,608 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01254,377,827 - 54,380,971 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41246,726,350 - 46,729,517 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1248,134,745 - 48,137,955 (-)NCBICelera
Cytogenetic Map12q16NCBI
PLCXD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X276,356 - 303,356 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38Y276,356 - 303,356 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX276,322 - 303,356 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 EnsemblY276,322 - 303,356 (+)EnsemblGRCh38hg38GRCh38
GRCh37X193,023 - 220,023 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh37Y143,023 - 170,023 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36Y132,991 - 160,020 (+)NCBINCBI36Build 36hg18NCBI36
Build 36X132,991 - 160,020 (+)NCBINCBI36Build 36hg18NCBI36
Build 34Y132,991 - 160,020NCBI
CeleraX820,894 - 846,333 (-)NCBICelera
Cytogenetic MapX;YNCBI
CHM1_1X172,967 - 203,581 (+)NCBICHM1_1
T2T-CHM13v2.0Y103,034 - 130,734 (+)NCBIT2T-CHM13v2.0
T2T-CHM13v2.0X103,482 - 131,585 (+)NCBIT2T-CHM13v2.0
Plcxd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395110,247,661 - 110,253,819 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5110,247,835 - 110,253,819 (+)EnsemblGRCm39 Ensembl
GRCm385110,099,969 - 110,105,953 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5110,099,969 - 110,105,953 (+)EnsemblGRCm38mm10GRCm38
MGSCv375110,528,988 - 110,534,972 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365110,340,271 - 110,344,117 (+)NCBIMGSCv36mm8
Celera5107,226,443 - 107,232,426 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map553.3NCBI
Plcxd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955499574,421 - 585,386 (+)NCBIChiLan1.0ChiLan1.0
LOC100969907
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X91,010 - 111,582 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1-v2Y46,873,352 - 46,897,697 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X94,666 - 116,153 (+)NCBINHGRI_mPanPan1
NHGRI_mPanPan1Y56,969 - 82,221 (+)NCBINHGRI_mPanPan1
PLCXD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X340,475 - 348,249 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX55,695 - 72,144 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X22,687 - 39,027 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX25,125 - 40,747 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X19,729 - 32,171 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X27,446 - 43,705 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X29,347 - 42,691 (+)NCBIUU_Cfam_GSD_1.0
Plcxd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404953147,387 - 153,807 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366444,222,930 - 4,234,695 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366444,222,937 - 4,229,227 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC110257938
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1Y6,971,001 - 6,985,133 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PLCXD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366605631,112 - 58,050 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Plcxd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624834267,654 - 272,505 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624834247,910 - 273,053 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Plcxd1
6 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:158
Count of miRNA genes:90
Interacting mature miRNAs:96
Transcripts:ENSRNOT00000072507, ENSRNOT00000073986
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)122806443346669029Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system endocrine system exocrine system hemolymphoid system hepatobiliary system nervous system renal system reproductive system respiratory system
High
Medium
Low 50 4 1
Below cutoff 3 14 8 9 8 16 20 25 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000072507   ⟹   ENSRNOP00000065030
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1252,641,222 - 52,676,608 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000073986   ⟹   ENSRNOP00000064541
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1246,579,225 - 46,582,392 (-)Ensembl
Rnor_6.0 Ensembl1252,641,222 - 52,644,260 (-)Ensembl
RefSeq Acc Id: NM_001427696   ⟹   NP_001414625
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81252,238,622 - 52,241,865 (-)NCBI
RefSeq Acc Id: XM_063270978   ⟹   XP_063127048
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81252,238,450 - 52,240,803 (-)NCBI
RefSeq Acc Id: XM_063270979   ⟹   XP_063127049
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81252,239,486 - 52,241,884 (-)NCBI
RefSeq Acc Id: XR_010056361
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81252,239,027 - 52,241,884 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414625 (Get FASTA)   NCBI Sequence Viewer  
  XP_063127048 (Get FASTA)   NCBI Sequence Viewer  
  XP_063127049 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM14081 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064541.3
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000065030   ⟸   ENSRNOT00000072507
RefSeq Acc Id: ENSRNOP00000064541   ⟸   ENSRNOT00000073986
RefSeq Acc Id: XP_063127048   ⟸   XM_063270978
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001414625   ⟸   NM_001427696
- UniProtKB: A6J2E2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063127049   ⟸   XM_063270979
- Peptide Label: isoform X2
Protein Domains
Phosphatidylinositol-specific phospholipase C X

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R583-F1-model_v2 AlphaFold M0R583 1-320 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560935 AgrOrtholog
Ensembl Genes ENSRNOG00000049866 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073986.3 UniProtKB/TrEMBL
Gene3D-CATH 3.20.20.190 UniProtKB/TrEMBL
InterPro PLC-like_Pdiesterase_TIM-brl UniProtKB/TrEMBL
  PLCXD1/2/3 UniProtKB/TrEMBL
  PLipase_C_PInositol-sp_X_dom UniProtKB/TrEMBL
KEGG Report rno:100909600 UniProtKB/TrEMBL
NCBI Gene Plcxd1 ENTREZGENE
PANTHER PI-PLC X DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  UNCHARACTERIZED UniProtKB/TrEMBL
PhenoGen Plcxd1 PhenoGen
PROSITE PIPLC_X_DOMAIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000049866 RatGTEx
SMART PLCXc UniProtKB/TrEMBL
Superfamily-SCOP PLC-like_Pdiesterase_TIM-brl UniProtKB/TrEMBL
UniProt A6J2E2 ENTREZGENE, UniProtKB/TrEMBL
  M0R583_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Plcxd1  phosphatidylinositol-specific phospholipase C, X domain containing 1  LOC100909600  PI-PLC X domain-containing protein 1-like  Data merged from RGD:6502568 737654 PROVISIONAL
2012-07-05 LOC100909600  PI-PLC X domain-containing protein 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-02-28 Plcxd1  phosphatidylinositol-specific phospholipase C, X domain containing 1  RGD1560935_predicted  similar to RIKEN cDNA A330045H12 gene (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1560935_predicted  similar to RIKEN cDNA A330045H12 gene (predicted)  LOC304575  similar to RIKEN cDNA A330045H12 gene  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC304575  similar to RIKEN cDNA A330045H12 gene      Symbol and Name status set to provisional 70820 PROVISIONAL