Pdcl2 (phosducin-like 2) - Rat Genome Database

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Gene: Pdcl2 (phosducin-like 2) Rattus norvegicus
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Symbol: Pdcl2
Name: phosducin-like 2
RGD ID: 1559712
Description: Predicted to be involved in protein folding and spermatid development. Predicted to act upstream of or within acrosome assembly and sperm axoneme assembly. Predicted to be active in endoplasmic reticulum. Orthologous to human PDCL2 (phosducin like 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; Cuprizon; trichloroethene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC498352; phosducin-like protein 2; RGD1559712; similar to phosducin-like 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81432,228,776 - 32,249,467 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1432,228,809 - 32,250,900 (+)EnsemblGRCr8
mRatBN7.21431,874,563 - 31,895,265 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1431,874,578 - 31,895,272 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1432,241,106 - 32,261,770 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01433,548,995 - 33,569,668 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01432,034,112 - 32,054,782 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01434,384,338 - 34,404,920 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1434,389,991 - 34,404,883 (+)Ensemblrn6Rnor6.0
Rnor_5.01434,170,394 - 34,190,924 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41434,151,347 - 34,166,988 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1431,175,969 - 31,196,319 (+)NCBICelera
Cytogenetic Map14p11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:36462395  


Genomics

Comparative Map Data
Pdcl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81432,228,776 - 32,249,467 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1432,228,809 - 32,250,900 (+)EnsemblGRCr8
mRatBN7.21431,874,563 - 31,895,265 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1431,874,578 - 31,895,272 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1432,241,106 - 32,261,770 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01433,548,995 - 33,569,668 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01432,034,112 - 32,054,782 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01434,384,338 - 34,404,920 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1434,389,991 - 34,404,883 (+)Ensemblrn6Rnor6.0
Rnor_5.01434,170,394 - 34,190,924 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41434,151,347 - 34,166,988 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1431,175,969 - 31,196,319 (+)NCBICelera
Cytogenetic Map14p11NCBI
PDCL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38455,556,519 - 55,592,245 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl455,556,519 - 55,592,245 (-)Ensemblhg38GRCh38
GRCh37456,422,686 - 56,458,412 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36456,117,449 - 56,153,136 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34456,263,620 - 56,299,307NCBI
Celera453,924,722 - 53,960,420 (-)NCBICelera
Cytogenetic Map4q12NCBI
HuRef452,371,990 - 52,407,692 (-)NCBIHuRef
CHM1_1456,457,818 - 56,493,430 (-)NCBICHM1_1
T2T-CHM13v2.0459,044,647 - 59,080,385 (-)NCBIT2T-CHM13v2.0
Pdcl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39576,459,963 - 76,479,003 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl576,459,962 - 76,479,003 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38576,312,116 - 76,331,156 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl576,312,115 - 76,331,156 (-)Ensemblmm10GRCm38
MGSCv37576,741,171 - 76,760,136 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36577,386,921 - 77,405,886 (-)NCBIMGSCv36mm8
Celera573,577,496 - 73,596,447 (-)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map540.88NCBI
Pdcl2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544715,363,806 - 15,386,071 (+)Ensembl
ChiLan1.0NW_00495544715,364,116 - 15,386,071 (+)NCBIChiLan1.0ChiLan1.0
PDCL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2374,200,117 - 74,237,980 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1474,402,121 - 74,439,885 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0468,343,615 - 68,381,364 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1474,907,904 - 74,944,895 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl474,907,904 - 74,944,895 (+)EnsemblpanPan2panpan1.1
PDCL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11347,832,161 - 47,861,716 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1347,832,166 - 47,861,614 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1347,789,247 - 47,813,445 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01348,443,111 - 48,472,648 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1348,443,116 - 48,472,559 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11348,117,888 - 48,147,442 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01347,646,577 - 47,676,403 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01348,595,351 - 48,624,891 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pdcl2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528528,365,853 - 28,390,522 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648217,907,713 - 17,932,224 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493648217,907,713 - 17,927,007 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDCL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl854,917,583 - 54,950,062 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1854,916,145 - 54,950,048 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2858,603,756 - 58,634,863 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PDCL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1712,969,993 - 13,005,120 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl712,978,707 - 13,005,082 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606613,726,839 - 13,761,767 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdcl2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476113,852,491 - 13,899,054 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476113,852,827 - 13,898,718 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Pdcl2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11133,050,233 - 33,070,264 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pdcl2
81 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:18
Count of miRNA genes:17
Interacting mature miRNAs:18
Transcripts:ENSRNOT00000002953
Prediction methods: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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141787564536079022Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143112133339507682Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141891545442433608Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142252151767521517Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141790672654251504Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
11 9 25 124 50 45 20 22 20 2 127 64 1 109 25 79 25 14 14

Sequence


Ensembl Acc Id: ENSRNOT00000002953   ⟹   ENSRNOP00000002953
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1432,234,383 - 32,250,900 (+)Ensembl
mRatBN7.2 Ensembl1431,880,161 - 31,895,272 (+)Ensembl
Rnor_6.0 Ensembl1434,389,991 - 34,404,883 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000101910   ⟹   ENSRNOP00000097165
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1432,228,809 - 32,250,900 (+)Ensembl
mRatBN7.2 Ensembl1431,874,578 - 31,895,272 (+)Ensembl
RefSeq Acc Id: NM_001399023   ⟹   NP_001385952
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81432,228,776 - 32,249,467 (+)NCBI
mRatBN7.21431,874,563 - 31,895,265 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001385952 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL89907 (Get FASTA)   NCBI Sequence Viewer  
  EDL89908 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002953.3
  ENSRNOP00000097165
  ENSRNOP00000097165.1
GenBank Protein QHI05890 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000002953   ⟸   ENSRNOT00000002953
Ensembl Acc Id: ENSRNOP00000097165   ⟸   ENSRNOT00000101910
RefSeq Acc Id: NP_001385952   ⟸   NM_001399023
- UniProtKB: A0A8I6B5E6 (UniProtKB/TrEMBL),   A0A6B9RYC6 (UniProtKB/TrEMBL)
Protein Domains
Phosducin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M610-F1-model_v2 AlphaFold F1M610 1-239 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:1559712 AgrOrtholog
BioCyc Gene G2FUF-15943 BioCyc
Ensembl Genes ENSRNOG00000002169 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002953.6 UniProtKB/TrEMBL
  ENSRNOT00000101910 ENTREZGENE
  ENSRNOT00000101910.2 UniProtKB/TrEMBL
Gene3D-CATH Glutaredoxin UniProtKB/TrEMBL
InterPro Phosducin-like_chap/apop_reg UniProtKB/TrEMBL
  Phosducin_thioredoxin-like_dom UniProtKB/TrEMBL
  Thioredoxin-like_sf UniProtKB/TrEMBL
NCBI Gene 498352 ENTREZGENE
PANTHER PHOSDUCIN-LIKE PROTEIN 2 UniProtKB/TrEMBL
  VIRAL IAP-ASSOCIATED FACTOR HOMOLOG UniProtKB/TrEMBL
Pfam Phosducin UniProtKB/TrEMBL
PhenoGen Pdcl2 PhenoGen
RatGTEx ENSRNOG00000002169 RatGTEx
Superfamily-SCOP Thiordxn-like_fd UniProtKB/TrEMBL
UniProt A0A6B9RYC6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B5E6 ENTREZGENE, UniProtKB/TrEMBL
  F1M610_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-28 Pdcl2  phosducin-like 2  RGD1559712_predicted  similar to phosducin-like 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1559712_predicted  similar to phosducin-like 2 (predicted)  LOC498352  similar to phosducin-like 2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498352  similar to phosducin-like 2      Symbol and Name status set to provisional 70820 PROVISIONAL