Pdcl2 (phosducin-like 2) - Rat Genome Database

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Gene: Pdcl2 (phosducin-like 2) Mus musculus
Analyze
Symbol: Pdcl2
Name: phosducin-like 2
RGD ID: 1558552
MGI Page MGI
Description: Acts upstream of or within acrosome assembly and sperm axoneme assembly. Is active in endoplasmic reticulum. Orthologous to human PDCL2 (phosducin like 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1700010B22Rik; 1700016K07Rik; Mgcp; Mgcphlp; phosducin-like protein 2; phosducin-like protein similar 1; protein B; Tphlp
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39576,459,963 - 76,479,003 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl576,459,962 - 76,479,003 (-)EnsemblGRCm39 Ensembl
GRCm38576,312,116 - 76,331,156 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl576,312,115 - 76,331,156 (-)EnsemblGRCm38mm10GRCm38
MGSCv37576,741,171 - 76,760,136 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36577,386,921 - 77,405,886 (-)NCBIMGSCv36mm8
Celera573,577,496 - 73,596,447 (-)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map540.88NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11116088   PMID:12477932   PMID:14610273   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16458478   PMID:16602821   PMID:21873635  
PMID:26346620   PMID:36278277  


Genomics

Comparative Map Data
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 Ensembl
GRCm38576,312,116 - 76,331,156 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl576,312,115 - 76,331,156 (-)EnsemblGRCm38mm10GRCm38
MGSCv37576,741,171 - 76,760,136 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36577,386,921 - 77,405,886 (-)NCBIMGSCv36mm8
Celera573,577,496 - 73,596,447 (-)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map540.88NCBI
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 (-)EnsemblGRCh38hg38GRCh38
GRCh37456,422,686 - 56,458,412 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36456,117,449 - 56,153,136 (-)NCBINCBI36Build 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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81432,228,776 - 32,249,467 (+)NCBIGRCr8
mRatBN7.21431,874,563 - 31,895,265 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1431,874,578 - 31,895,272 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1432,241,106 - 32,261,770 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01433,548,995 - 33,569,668 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01432,034,112 - 32,054,782 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01434,384,338 - 34,404,920 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1434,389,991 - 34,404,883 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01434,170,394 - 34,190,924 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41434,151,347 - 34,166,988 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1431,175,969 - 31,196,319 (+)NCBICelera
Cytogenetic Map14p11NCBI
Pdcl2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544715,363,806 - 15,386,071 (+)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1347,789,247 - 47,813,445 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01348,443,111 - 48,472,648 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476113,852,827 - 13,898,718 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pdcl2
729 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:107
Count of miRNA genes:55
Interacting mature miRNAs:55
Transcripts:ENSMUST00000031145, ENSMUST00000122213
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301693Sle6_msystemic lupus erythematosus susceptibility 6 (mouse)Not determined5889069387841837Mouse
11341716Rvfs3_mRift Valley fever susceptibility 3 (mouse)526441234138455402Mouse
4140990Lgq6_mlate growth QTL 6 (mouse)Not determined32133234100777931Mouse
4141219W10q16_mweight 10 weeks QTL 16 (mouse)Not determined32133234100777931Mouse
1301524Lmb2_mlupus in MRL and B6 F2 cross (mouse)Not determined537581488112465722Mouse
1301698Pcfm4_mperiosteal circumference and femur length 4 (mouse)Not determined54458584378585965Mouse
13207584Mwmlpt4_mMorris water maze latency to platform, training, 4 (mouse)54632260680322606Mouse
13207588Mwmlpa4_mMorris water maze latency to platform, all, 4 (mouse)54632260680322606Mouse
14746981Manh57_mmandible shape 57 (mouse)54716974281169742Mouse
11041665Lmr24_mleishmaniasis resistance 24 (mouse)552694462107321041Mouse
11041899Lmr24a_mleishmaniasis resistance 24a (mouse)552694462107321041Mouse
4142064Tmc1m4_mTmc1 modifier 4 (mouse)Not determined554500177127001072Mouse
1301243Bmd2_mbone mineral density 2 (mouse)Not determined555388334100455525Mouse
4142317Rgcs1_mretinal ganglion cell susceptible 1 (mouse)Not determined55388334108762627Mouse
13464248Ahl13_mage related hearing loss, early onset 13 (mouse)55564587489645995Mouse
10043962Obq27_mobesity QTL 27 (mouse)Not determined55628565590285655Mouse
10044005Ahl7_mage related hearing loss 7 (mouse)Not determined55833050292330641Mouse
11040591Lmr3c_mleishmaniasis resistance 3c (mouse)55960280193602980Mouse
11040592Lmr3d_mleishmaniasis resistance 3d (mouse)55960280193602980Mouse
11040589Lmr3a_mleishmaniasis resistance 3a (mouse)55960280193602980Mouse
11040590Lmr3b_mleishmaniasis resistance 3b (mouse)55960280193602980Mouse
1301843Listr1_mlisteriosis resistance 1 (mouse)Not determined56024608194246203Mouse
13464247Ahl14_mage related hearing loss, early onset 14 (mouse)56040306294403160Mouse
11252124Modvl6_mmodifier of vacuolated lens 6 (mouse)56265056896650688Mouse
4142428Modvl1_mmodifier of vacuolated lens 1 (mouse)Not determined6265056896650688Mouse
1301010ahl2_mage related hearing loss 2 (mouse)Not determined56265056896650688Mouse
13464250Ahl15_mage related hearing loss, early onset 15 (mouse)56265056896650688Mouse
10045972Tir5_mtrypanosome infection response 5 (mouse)Not determined563705442104387065Mouse
11049560Lmr24d_mleishmaniasis resistance 24d (mouse)56437487798374996Mouse
12904739M2fscn2_mmodifier 2 of FSCN2 (mouse)566529661100529661Mouse
12904740M1fscn2_mmodifier 1 of Fscn2 (mouse)566529661100529661Mouse
26884395Humsd2_mhumerus midshaft diameter 2, 10 week (mouse)570057343132528839Mouse
10043993Hbnr10_mHeligmosomoides bakeri nematode resistance 10 (mouse)Not determined572418876106419011Mouse
27226719Tibw6_mtibia width 6, proximal, 16 week (mouse)572857343139985755Mouse
10412069Desp3_mdespair 3 (mouse)Not determined57293268477246203Mouse
25314315Mlh1fc4_mMLH1 foci count 4 (mouse)574460661132528839Mouse
13506928Recrq8_mrecombination rate in male meiosis QTL 8 (mouse)574460661132528839Mouse
4141124Dshv2_mdorsal hippocampal volume 2 (mouse)Not determined57531534898019803Mouse
1357431Cia27_mcollagen induced arthritis 27 (mouse)Not determined575315348120018629Mouse
4141438Skmw13_mskeletal muscle weight 13 (mouse)Not determined576190263110190479Mouse
4141505Chlq14_mcirculating hormone level QTL 14 (mouse)Not determined576280786110280917Mouse
1300986Hdlq2_mHDL QTL 2 (mouse)Not determined576280786110280917Mouse
1301691Cdcs10_mcytokine deficiency colitis susceptibility 10 (mouse)Not determined576280786110280917Mouse
1301829Thyls2_mthymic lymphoma susceptibility 2 (mouse)Not determined576445064110445225Mouse
1301713Dbsty2_mdiabesity 2 (mouse)Not determined576445064110445225Mouse
13464249Ahl16_mage related hearing loss, early onset 16 (mouse)576445064110445225Mouse
1300931Cocrb6_mcocaine related behavior 6 (mouse)Not determined576445064110445225Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000031145   ⟹   ENSMUSP00000031145
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl576,459,974 - 76,479,003 (-)Ensembl
GRCm38.p6 Ensembl576,312,127 - 76,331,156 (-)Ensembl
RefSeq Acc Id: ENSMUST00000122213   ⟹   ENSMUSP00000113699
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl576,459,962 - 76,478,980 (-)Ensembl
GRCm38.p6 Ensembl576,312,115 - 76,331,133 (-)Ensembl
RefSeq Acc Id: NM_001310637   ⟹   NP_001297566
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39576,459,963 - 76,479,003 (-)NCBI
GRCm38576,312,116 - 76,331,156 (-)NCBI
Sequence:
RefSeq Acc Id: NM_023508   ⟹   NP_075997
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39576,459,963 - 76,479,003 (-)NCBI
GRCm38576,312,116 - 76,331,156 (-)NCBI
MGSCv37576,741,171 - 76,760,136 (-)RGD
Celera573,577,496 - 73,596,447 (-)RGD
cM Map5 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_075997   ⟸   NM_023508
- Peptide Label: isoform 1
- UniProtKB: Q9DA99 (UniProtKB/Swiss-Prot),   Q3V0H7 (UniProtKB/Swiss-Prot),   Q9WUP3 (UniProtKB/Swiss-Prot),   Q78Y63 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001297566   ⟸   NM_001310637
- Peptide Label: isoform 2
- UniProtKB: Q78Y63 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000031145   ⟸   ENSMUST00000031145
RefSeq Acc Id: ENSMUSP00000113699   ⟸   ENSMUST00000122213

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q78Y63-F1-model_v2 AlphaFold Q78Y63 1-240 view protein structure

Promoters
RGD ID:6886942
Promoter ID:EPDNEW_M6922
Type:initiation region
Name:Pdcl2_1
Description:Mus musculus phosducin-like 2 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38576,331,133 - 76,331,193EPDNEW
RGD ID:6838037
Promoter ID:MM_KWN:42630
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell
Transcripts:ENSMUST00000122213,   OTTMUST00000065446,   OTTMUST00000065457
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36576,759,851 - 76,760,351 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1890655 AgrOrtholog
Ensembl Genes ENSMUSG00000029235 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000031145 ENTREZGENE
  ENSMUST00000031145.7 UniProtKB/Swiss-Prot
  ENSMUST00000122213 ENTREZGENE
  ENSMUST00000122213.8 UniProtKB/Swiss-Prot
Gene3D-CATH Glutaredoxin UniProtKB/Swiss-Prot
InterPro Phosducin_thioredoxin-like_dom UniProtKB/Swiss-Prot
  Thioredoxin-like_sf UniProtKB/Swiss-Prot
KEGG Report mmu:79455 UniProtKB/Swiss-Prot
MGD MGI:1890655 ENTREZGENE
NCBI Gene 79455 ENTREZGENE
PANTHER PHOSDUCIN-LIKE PROTEIN 2 UniProtKB/Swiss-Prot
  VIRAL IAP-ASSOCIATED FACTOR HOMOLOG UniProtKB/Swiss-Prot
Pfam Phosducin UniProtKB/Swiss-Prot
PhenoGen Pdcl2 PhenoGen
Superfamily-SCOP SSF52833 UniProtKB/Swiss-Prot
UniProt PDCL2_MOUSE UniProtKB/Swiss-Prot
  Q3V0H7 ENTREZGENE
  Q78Y63 ENTREZGENE
  Q9DA99 ENTREZGENE
  Q9WUP3 ENTREZGENE
UniProt Secondary Q3V0H7 UniProtKB/Swiss-Prot
  Q9DA99 UniProtKB/Swiss-Prot
  Q9WUP3 UniProtKB/Swiss-Prot