Pdlim5 (PDZ and LIM domain 5) - Rat Genome Database

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Gene: Pdlim5 (PDZ and LIM domain 5) Rattus norvegicus
Analyze
Symbol: Pdlim5
Name: PDZ and LIM domain 5
RGD ID: 621076
Description: Enables cytoskeletal protein binding activity; protein N-terminus binding activity; and protein kinase C binding activity. Involved in cell growth involved in cardiac muscle cell development; regulation of dendritic spine morphogenesis; and regulation of synapse assembly. Located in cytosol; membrane; and postsynaptic density. Orthologous to human PDLIM5 (PDZ and LIM domain 5); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Enh; Enh1; enigma homolog; enigma-like PDZ and LIM domains protein; PDZ and LIM domain protein 5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22230,952,251 - 231,120,329 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2230,952,248 - 231,120,275 (-)Ensembl
Rnor_6.02247,815,214 - 247,989,198 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2247,818,243 - 247,988,462 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02266,345,722 - 266,518,817 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42240,177,301 - 240,304,192 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12240,164,042 - 240,283,654 (-)NCBI
Celera2223,009,335 - 223,173,420 (-)NCBICelera
Cytogenetic Map2q44NCBI
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
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aristolochic acid  (ISO)
arsenous acid  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
Brodifacoum  (EXP)
butanal  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
disulfiram  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenamidone  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
gallic acid  (ISO)
gentamycin  (EXP)
haloperidol  (ISO)
hydrogen cyanide  (ISO)
hydrogen peroxide  (ISO)
irinotecan  (ISO)
ivermectin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
leflunomide  (ISO)
lithium chloride  (ISO)
melphalan  (ISO)
methylmercury chloride  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
nickel atom  (ISO)
nickel subsulfide  (EXP)
nitrofen  (EXP)
NS-398  (ISO)
ozone  (ISO)
paracetamol  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium cyanide  (ISO)
propanal  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
torcetrapib  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Cardiac fibroblast-derived microRNA passenger strand-enriched exosomes mediate cardiomyocyte hypertrophy. Bang C, etal., J Clin Invest. 2014 May;124(5):2136-46. doi: 10.1172/JCI70577. Epub 2014 Apr 17.
2. 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.
3. Postsynaptic PDLIM5/Enigma Homolog binds SPAR and causes dendritic spine shrinkage. Herrick S, etal., Mol Cell Neurosci. 2010 Feb;43(2):188-200. doi: 10.1016/j.mcn.2009.10.009. Epub 2009 Nov 10.
4. Protein-protein interaction of zinc finger LIM domains with protein kinase C. Kuroda S, etal., J Biol Chem 1996 Dec 6;271(49):31029-32.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. ENH, containing PDZ and LIM domains, heart/skeletal muscle-specific protein, associates with cytoskeletal proteins through the PDZ domain. Nakagawa N, etal., Biochem Biophys Res Commun. 2000 Jun 7;272(2):505-12.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. GOA pipeline RGD automated data pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12665800   PMID:16396499   PMID:16549780   PMID:18296710   PMID:20097676   PMID:21532576   PMID:22497889   PMID:25468996   PMID:25524223   PMID:26365342   PMID:27289039  


Genomics

Comparative Map Data
Pdlim5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22230,952,251 - 231,120,329 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2230,952,248 - 231,120,275 (-)Ensembl
Rnor_6.02247,815,214 - 247,989,198 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2247,818,243 - 247,988,462 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02266,345,722 - 266,518,817 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42240,177,301 - 240,304,192 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12240,164,042 - 240,283,654 (-)NCBI
Celera2223,009,335 - 223,173,420 (-)NCBICelera
Cytogenetic Map2q44NCBI
PDLIM5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38494,451,942 - 94,668,223 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl494,451,857 - 94,668,227 (+)EnsemblGRCh38hg38GRCh38
GRCh37495,373,093 - 95,589,374 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36495,592,061 - 95,808,400 (+)NCBINCBI36hg18NCBI36
Build 34495,730,215 - 95,946,554NCBI
Celera492,670,285 - 92,886,273 (+)NCBI
Cytogenetic Map4q22.3NCBI
HuRef491,110,743 - 91,326,816 (+)NCBIHuRef
CHM1_1495,350,391 - 95,566,419 (+)NCBICHM1_1
T2T-CHM13v2.0497,767,448 - 97,983,384 (+)NCBI
Pdlim5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393141,945,346 - 142,101,480 (-)NCBIGRCm39mm39
GRCm39 Ensembl3141,945,351 - 142,101,457 (-)Ensembl
GRCm383142,239,585 - 142,395,719 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3142,239,590 - 142,395,696 (-)EnsemblGRCm38mm10GRCm38
MGSCv373141,903,568 - 142,058,630 (-)NCBIGRCm37mm9NCBIm37
MGSCv363142,180,044 - 142,333,004 (-)NCBImm8
Celera3148,660,401 - 148,819,753 (-)NCBICelera
Cytogenetic Map3H1NCBI
Pdlim5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554055,109,778 - 5,315,092 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554055,109,778 - 5,312,192 (+)NCBIChiLan1.0ChiLan1.0
PDLIM5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1497,486,566 - 97,702,060 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl497,486,566 - 97,702,060 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0486,814,136 - 87,030,605 (+)NCBIMhudiblu_PPA_v0panPan3
PDLIM5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13217,294,023 - 17,505,212 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3217,294,073 - 17,502,409 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3224,444,240 - 24,655,897 (-)NCBI
ROS_Cfam_1.03217,472,836 - 17,683,974 (+)NCBI
ROS_Cfam_1.0 Ensembl3217,472,845 - 17,683,970 (+)Ensembl
UMICH_Zoey_3.13217,445,268 - 17,656,838 (+)NCBI
UNSW_CanFamBas_1.03217,266,060 - 17,477,973 (+)NCBI
UU_Cfam_GSD_1.03222,414,982 - 22,632,647 (-)NCBI
Pdlim5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530124,194,484 - 24,421,688 (-)NCBI
SpeTri2.0NW_0049366871,944,095 - 2,152,501 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDLIM5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8125,044,028 - 125,259,948 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18125,044,027 - 125,259,969 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28134,331,215 - 134,558,541 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDLIM5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1742,702,175 - 42,912,859 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl742,819,454 - 42,908,137 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603721,065,966 - 21,276,910 (+)NCBIVero_WHO_p1.0
Pdlim5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475722,332,505 - 22,597,586 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462475722,332,479 - 22,597,312 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D2Rat295  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22230,963,738 - 230,963,986 (+)MAPPERmRatBN7.2
Rnor_6.02247,826,701 - 247,826,948NCBIRnor6.0
Rnor_5.02266,357,209 - 266,357,456UniSTSRnor5.0
RGSC_v3.42240,185,760 - 240,186,008RGDRGSC3.4
RGSC_v3.42240,185,761 - 240,186,008UniSTSRGSC3.4
RGSC_v3.12240,172,500 - 240,172,748RGD
Celera2223,017,795 - 223,018,042UniSTS
SHRSP x BN Map298.7698RGD
SHRSP x BN Map298.7698UniSTS
Cytogenetic Map2q44UniSTS
RH129037  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22231,019,248 - 231,019,438 (+)MAPPERmRatBN7.2
Rnor_6.02247,881,581 - 247,881,770NCBIRnor6.0
Rnor_5.02266,412,603 - 266,412,792UniSTSRnor5.0
RGSC_v3.42240,242,672 - 240,242,861UniSTSRGSC3.4
Celera2223,073,187 - 223,073,376UniSTS
Cytogenetic Map2q44UniSTS
RH132279  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22230,965,526 - 230,965,723 (+)MAPPERmRatBN7.2
Rnor_6.02247,828,489 - 247,828,685NCBIRnor6.0
Rnor_5.02266,358,997 - 266,359,193UniSTSRnor5.0
RGSC_v3.42240,187,549 - 240,187,745UniSTSRGSC3.4
Celera2223,019,583 - 223,019,779UniSTS
RH 3.4 Map21580.5UniSTS
Cytogenetic Map2q44UniSTS
RH144581  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22230,965,009 - 230,965,164 (+)MAPPERmRatBN7.2
Rnor_6.02247,827,972 - 247,828,126NCBIRnor6.0
Rnor_5.02266,358,480 - 266,358,634UniSTSRnor5.0
RGSC_v3.42240,187,032 - 240,187,186UniSTSRGSC3.4
Celera2223,019,066 - 223,019,220UniSTS
RH 3.4 Map21580.8UniSTS
Cytogenetic Map2q44UniSTS
RH137910  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22231,074,716 - 231,074,966 (+)MAPPERmRatBN7.2
Rnor_6.02247,936,978 - 247,937,227NCBIRnor6.0
Rnor_5.02266,468,001 - 266,468,250UniSTSRnor5.0
RGSC_v3.42240,300,525 - 240,300,774UniSTSRGSC3.4
Celera2223,128,724 - 223,128,973UniSTS
RH 3.4 Map21537.0UniSTS
Cytogenetic Map2q44UniSTS
AI014024  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map21590.0UniSTS
Cytogenetic Map2q44UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2215377404237938339Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2218414747240841241Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2223389739249053267Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2223389739249053267Rat
631563Hcuc3Hepatic copper content QTL 33.87hepatic copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)2229059610249053267Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:11
Count of miRNA genes:11
Interacting mature miRNAs:11
Transcripts:ENSRNOT00000022387
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.


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 circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 48 32 19 32 8 11 72 35 34 11 8
Low 9 9 9 2 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233407 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233409 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233418 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233420 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233421 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233423 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103049 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103050 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103056 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103057 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U48247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000022387   ⟹   ENSRNOP00000022387
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2230,952,248 - 231,120,266 (-)Ensembl
Rnor_6.0 Ensembl2247,818,243 - 247,988,462 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095015   ⟹   ENSRNOP00000082394
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2230,952,248 - 231,120,266 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097256   ⟹   ENSRNOP00000091194
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2230,952,248 - 231,120,266 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106810   ⟹   ENSRNOP00000094742
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2231,019,714 - 231,120,275 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109323   ⟹   ENSRNOP00000091918
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2231,019,267 - 231,120,244 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114385   ⟹   ENSRNOP00000093276
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2230,952,248 - 231,120,266 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115118   ⟹   ENSRNOP00000097787
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2230,952,248 - 231,120,266 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115772   ⟹   ENSRNOP00000091892
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2231,019,714 - 231,120,275 (-)Ensembl
RefSeq Acc Id: NM_053326   ⟹   NP_445778
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,955,276 - 231,120,223 (-)NCBI
Rnor_6.02247,818,241 - 247,988,462 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
RGSC_v3.42240,177,301 - 240,304,192 (-)RGD
Celera2223,009,335 - 223,173,420 (-)RGD
Sequence:
RefSeq Acc Id: XM_006233412   ⟹   XP_006233474
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
Rnor_6.02247,815,214 - 247,989,184 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233416   ⟹   XP_006233478
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
Rnor_6.02247,815,214 - 247,989,176 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233418   ⟹   XP_006233480
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
Rnor_6.02247,815,214 - 247,988,960 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233419   ⟹   XP_006233481
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
Rnor_6.02247,815,214 - 247,988,946 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233420   ⟹   XP_006233482
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,019,247 - 231,120,329 (-)NCBI
Rnor_6.02247,881,579 - 247,988,836 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233421   ⟹   XP_006233483
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,019,247 - 231,120,329 (-)NCBI
Rnor_6.02247,881,579 - 247,988,836 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233422   ⟹   XP_006233484
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,019,247 - 231,120,329 (-)NCBI
Rnor_6.02247,881,579 - 247,988,836 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233423   ⟹   XP_006233485
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,019,247 - 231,120,329 (-)NCBI
Rnor_6.02247,881,579 - 247,988,836 (-)NCBI
Rnor_5.02266,345,722 - 266,518,817 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039103049   ⟹   XP_038958977
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103050   ⟹   XP_038958978
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103051   ⟹   XP_038958979
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103052   ⟹   XP_038958980
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103053   ⟹   XP_038958981
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103054   ⟹   XP_038958982
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103055   ⟹   XP_038958983
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103056   ⟹   XP_038958984
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22230,952,251 - 231,120,329 (-)NCBI
RefSeq Acc Id: XM_039103057   ⟹   XP_038958985
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22231,019,247 - 231,120,329 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_445778   ⟸   NM_053326
- UniProtKB: Q62920 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006233481   ⟸   XM_006233419
- Peptide Label: isoform X12
- UniProtKB: Q62920 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006233480   ⟸   XM_006233418
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_006233478   ⟸   XM_006233416
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006233474   ⟸   XM_006233412
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006233485   ⟸   XM_006233423
- Peptide Label: isoform X17
- Sequence:
RefSeq Acc Id: XP_006233484   ⟸   XM_006233422
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: XP_006233483   ⟸   XM_006233421
- Peptide Label: isoform X15
- Sequence:
RefSeq Acc Id: XP_006233482   ⟸   XM_006233420
- Peptide Label: isoform X14
- Sequence:
RefSeq Acc Id: ENSRNOP00000022387   ⟸   ENSRNOT00000022387
RefSeq Acc Id: XP_038958984   ⟸   XM_039103056
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038958983   ⟸   XM_039103055
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038958982   ⟸   XM_039103054
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038958981   ⟸   XM_039103053
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038958980   ⟸   XM_039103052
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038958978   ⟸   XM_039103050
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038958977   ⟸   XM_039103049
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038958979   ⟸   XM_039103051
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038958985   ⟸   XM_039103057
- Peptide Label: isoform X13
RefSeq Acc Id: ENSRNOP00000093276   ⟸   ENSRNOT00000114385
RefSeq Acc Id: ENSRNOP00000097787   ⟸   ENSRNOT00000115118
RefSeq Acc Id: ENSRNOP00000091194   ⟸   ENSRNOT00000097256
RefSeq Acc Id: ENSRNOP00000091892   ⟸   ENSRNOT00000115772
RefSeq Acc Id: ENSRNOP00000082394   ⟸   ENSRNOT00000095015
RefSeq Acc Id: ENSRNOP00000094742   ⟸   ENSRNOT00000106810
RefSeq Acc Id: ENSRNOP00000091918   ⟸   ENSRNOT00000109323
Protein Domains
LIM zinc-binding   PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62920-F1-model_v2 AlphaFold Q62920 1-591 view protein structure

Transcriptome

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

Promoters
RGD ID:13691793
Promoter ID:EPDNEW_R2317
Type:initiation region
Name:Pdlim5_1
Description:PDZ and LIM domain 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02247,988,478 - 247,988,538EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 266414737 266414738 T C snv DOB/Oda (KyushuU)
2 266423823 266423824 G A snv DOB/Oda (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621076 AgrOrtholog
BioCyc Gene G2FUF-51001 BioCyc
Ensembl Genes ENSRNOG00000016419 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022387 ENTREZGENE
  ENSRNOP00000082394.1 UniProtKB/TrEMBL
  ENSRNOP00000091194.1 UniProtKB/TrEMBL
  ENSRNOP00000091892 ENTREZGENE
  ENSRNOP00000091892.1 UniProtKB/TrEMBL
  ENSRNOP00000091918 ENTREZGENE
  ENSRNOP00000091918.1 UniProtKB/TrEMBL
  ENSRNOP00000093276 ENTREZGENE
  ENSRNOP00000093276.1 UniProtKB/TrEMBL
  ENSRNOP00000094742 ENTREZGENE
  ENSRNOP00000094742.1 UniProtKB/TrEMBL
  ENSRNOP00000097787 ENTREZGENE
  ENSRNOP00000097787.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022387 ENTREZGENE
  ENSRNOT00000095015.1 UniProtKB/TrEMBL
  ENSRNOT00000097256.1 UniProtKB/TrEMBL
  ENSRNOT00000106810 ENTREZGENE
  ENSRNOT00000106810.1 UniProtKB/TrEMBL
  ENSRNOT00000109323 ENTREZGENE
  ENSRNOT00000109323.1 UniProtKB/TrEMBL
  ENSRNOT00000114385 ENTREZGENE
  ENSRNOT00000114385.1 UniProtKB/TrEMBL
  ENSRNOT00000115118 ENTREZGENE
  ENSRNOT00000115118.1 UniProtKB/TrEMBL
  ENSRNOT00000115772 ENTREZGENE
  ENSRNOT00000115772.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot
InterPro DUF4749 UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
  PDZ_sf UniProtKB/Swiss-Prot
  Znf_LIM UniProtKB/Swiss-Prot
KEGG Report rno:64353 UniProtKB/Swiss-Prot
NCBI Gene 64353 ENTREZGENE
Pfam DUF4749 UniProtKB/Swiss-Prot
  LIM UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
PhenoGen Pdlim5 PhenoGen
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
SMART LIM UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50156 UniProtKB/Swiss-Prot
UniProt A0A8I6ADM7_RAT UniProtKB/TrEMBL
  A0A8I6ARU2_RAT UniProtKB/TrEMBL
  A0A8I6B1G1_RAT UniProtKB/TrEMBL
  A0A8I6G7D0_RAT UniProtKB/TrEMBL
  A0A8I6GJC1_RAT UniProtKB/TrEMBL
  A0A8I6GJY3_RAT UniProtKB/TrEMBL
  A0A8I6GKL2_RAT UniProtKB/TrEMBL
  PDLI5_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Pdlim5  PDZ and LIM domain 5  Enh  enigma homolog  Symbol and Name updated 1299863 APPROVED
2005-01-20 Enh  enigma homolog      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Enh  enigma homolog      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains three LIM domains with two zinc-finger motifs in each domain 632670
gene_drugs protein translocated from membrane fraction to cytosol on phorbol ester treatment 632670
gene_function phosphorylates protein kinase C by associating with the amino terminal region 632670