Pdlim3 (PDZ and LIM domain 3) - Rat Genome Database

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Gene: Pdlim3 (PDZ and LIM domain 3) Rattus norvegicus
Analyze
Symbol: Pdlim3
Name: PDZ and LIM domain 3
RGD ID: 620427
Description: Enables actinin binding activity. Predicted to be involved in actin cytoskeleton organization; heart development; and muscle structure development. Predicted to act upstream of or within actin filament organization. Located in Z disc. Orthologous to human PDLIM3 (PDZ and LIM domain 3); INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: actinin alpha 2 associated LIM protein; actinin-associated LIM protein; Actn2lp; Alp; alpha-actinin-2-associated LIM protein; PDZ and LIM domain protein 3; SK-2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Arunc2 Arunc1 Arunc4
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81653,085,020 - 53,116,495 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1653,085,020 - 53,116,217 (-)EnsemblGRCr8
mRatBN7.21646,352,460 - 46,383,680 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1646,352,467 - 46,383,657 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1651,754,729 - 51,785,861 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01655,123,468 - 55,154,656 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01650,394,110 - 50,425,252 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01649,543,140 - 49,574,362 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1649,543,142 - 49,574,390 (-)Ensemblrn6Rnor6.0
Rnor_5.01649,271,210 - 49,303,161 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41649,637,068 - 49,668,802 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1644,350,214 - 44,381,388 (-)NCBICelera
RGSC_v3.11649,637,142 - 49,668,877 (-)NCBI
Cytogenetic Map16q11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (EXP,ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,5-hexanedione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
aconitine  (EXP)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium atom  (EXP)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
choline  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
cytarabine  (ISO)
DDT  (EXP)
dibutyl phthalate  (ISO)
diethylstilbestrol  (EXP)
diquat  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
etoposide  (ISO)
folic acid  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
L-methionine  (ISO)
losartan  (EXP)
Mesaconitine  (EXP)
metformin  (EXP)
methapyrilene  (ISO)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nickel sulfate  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
paracetamol  (EXP)
paraquat  (EXP)
perfluorooctanoic acid  (EXP)
phenformin  (EXP)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
progesterone  (ISO)
raloxifene  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
thalidomide  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
actin cytoskeleton  (ISO)
adherens junction  (IBA)
cytoplasm  (IEA)
cytosol  (IEA,ISO)
filamentous actin  (IBA)
stress fiber  (IBA)
Z disc  (IBA,IDA,IEA)

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
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
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. Actinin-associated LIM protein: identification of a domain interaction between PDZ and spectrin-like repeat motifs. Xia H, etal., J Cell Biol 1997 Oct 20;139(2):507-15.
Additional References at PubMed
PMID:11238905   PMID:11329061   PMID:12477932   PMID:15489334   PMID:35352799  


Genomics

Comparative Map Data
Pdlim3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81653,085,020 - 53,116,495 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1653,085,020 - 53,116,217 (-)EnsemblGRCr8
mRatBN7.21646,352,460 - 46,383,680 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1646,352,467 - 46,383,657 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1651,754,729 - 51,785,861 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01655,123,468 - 55,154,656 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01650,394,110 - 50,425,252 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01649,543,140 - 49,574,362 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1649,543,142 - 49,574,390 (-)Ensemblrn6Rnor6.0
Rnor_5.01649,271,210 - 49,303,161 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41649,637,068 - 49,668,802 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1644,350,214 - 44,381,388 (-)NCBICelera
RGSC_v3.11649,637,142 - 49,668,877 (-)NCBI
Cytogenetic Map16q11NCBI
PDLIM3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384185,500,660 - 185,535,507 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4185,500,660 - 185,535,507 (-)Ensemblhg38GRCh38
GRCh374186,421,814 - 186,456,661 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364186,659,899 - 186,693,650 (-)NCBIBuild 36Build 36hg18NCBI36
Build 344186,798,059 - 186,831,794NCBI
Celera4183,749,238 - 183,781,710 (-)NCBICelera
Cytogenetic Map4q35.1NCBI
HuRef4182,175,438 - 182,209,519 (-)NCBIHuRef
CHM1_14186,398,441 - 186,430,909 (-)NCBICHM1_1
T2T-CHM13v2.04188,844,192 - 188,876,603 (-)NCBIT2T-CHM13v2.0
Pdlim3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39846,338,524 - 46,372,672 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl846,338,498 - 46,372,585 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38845,885,487 - 45,919,635 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl845,885,461 - 45,919,548 (+)Ensemblmm10GRCm38
MGSCv37846,970,839 - 47,004,900 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36847,384,302 - 47,418,363 (+)NCBIMGSCv36mm8
Celera848,569,007 - 48,602,415 (+)NCBICelera
Cytogenetic Map8B1.1NCBI
cM Map825.86NCBI
Pdlim3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540323,546,291 - 23,579,975 (+)Ensembl
ChiLan1.0NW_00495540323,546,291 - 23,579,975 (+)NCBIChiLan1.0ChiLan1.0
PDLIM3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23183,236,644 - 183,270,599 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14183,584,749 - 183,618,714 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04177,664,420 - 177,698,364 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14189,880,930 - 189,914,707 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4189,880,938 - 189,914,707 (-)EnsemblpanPan2panpan1.1
PDLIM3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11645,111,358 - 45,141,444 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1645,111,372 - 45,140,895 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1645,596,679 - 45,626,635 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01647,324,629 - 47,354,794 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1647,324,611 - 47,354,792 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11645,292,955 - 45,322,927 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01645,905,420 - 45,935,439 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01646,036,947 - 46,067,096 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pdlim3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494334,235,812 - 34,265,116 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365543,844,743 - 3,874,174 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365543,844,896 - 3,874,168 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDLIM3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1546,513,449 - 46,546,507 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11546,516,178 - 46,546,658 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21553,297,824 - 53,328,219 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PDLIM3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17131,443,131 - 131,477,575 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7131,441,674 - 131,477,554 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037111,704,011 - 111,738,337 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdlim3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476916,340,494 - 16,374,208 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476916,341,297 - 16,374,106 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pdlim3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11341,971,215 - 42,002,477 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pdlim3
114 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:506
Count of miRNA genes:163
Interacting mature miRNAs:192
Transcripts:ENSRNOT00000017054, ENSRNOT00000017568
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164445512389455123Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)163692878281928782Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)164199206486992064Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421266955197Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162846870173468701Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164909919691442908Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16423421253708481Rat
631833Sach2Saccharin preference QTL 240.01consumption behavior trait (VT:0002069)calculated saccharin drink intake rate (CMO:0001613)164975766656898388Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)163105803976058039Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)163439829479398294Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683908666195506Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683908666195506Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)163188527176885271Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164445512389455123Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683908666195506Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161773081872536785Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)161590580260905802Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683908666195506Rat

Markers in Region
RH143054  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21646,359,976 - 46,360,204 (+)MAPPERmRatBN7.2
Rnor_6.01649,550,657 - 49,550,884NCBIRnor6.0
Rnor_5.01649,279,238 - 49,279,465UniSTSRnor5.0
RGSC_v3.41649,644,581 - 49,644,808UniSTSRGSC3.4
Celera1644,357,727 - 44,357,954UniSTS
RH 3.4 Map16456.3UniSTS
Cytogenetic Map16q11UniSTS
BF390733  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21646,371,053 - 46,371,211 (+)MAPPERmRatBN7.2
Rnor_6.01649,561,734 - 49,561,891NCBIRnor6.0
Rnor_5.01649,290,315 - 49,290,472UniSTSRnor5.0
RGSC_v3.41649,655,658 - 49,655,815UniSTSRGSC3.4
Celera1644,368,804 - 44,368,961UniSTS
RH 3.4 Map16441.31UniSTS
Cytogenetic Map16q11UniSTS


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
16 12 67 147 91 90 59 27 59 6 285 127 11 121 75 92 31 16 16

Sequence


Ensembl Acc Id: ENSRNOT00000017054   ⟹   ENSRNOP00000017054
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1653,085,020 - 53,116,217 (-)Ensembl
mRatBN7.2 Ensembl1646,352,467 - 46,383,657 (-)Ensembl
Rnor_6.0 Ensembl1649,543,142 - 49,574,390 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000017568   ⟹   ENSRNOP00000017568
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1653,085,027 - 53,116,194 (-)Ensembl
mRatBN7.2 Ensembl1646,352,467 - 46,383,634 (-)Ensembl
Rnor_6.0 Ensembl1649,543,147 - 49,574,314 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000085535   ⟹   ENSRNOP00000075153
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1653,085,020 - 53,116,217 (-)Ensembl
mRatBN7.2 Ensembl1646,352,467 - 46,383,657 (-)Ensembl
Rnor_6.0 Ensembl1649,543,144 - 49,574,321 (-)Ensembl
RefSeq Acc Id: NM_053650   ⟹   NP_446102
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81653,085,020 - 53,116,217 (-)NCBI
mRatBN7.21646,352,460 - 46,383,657 (-)NCBI
Rnor_6.01649,543,144 - 49,574,321 (-)NCBI
Rnor_5.01649,271,210 - 49,303,161 (-)NCBI
RGSC_v3.41649,637,068 - 49,668,802 (-)RGD
Celera1644,350,214 - 44,381,388 (-)RGD
Sequence:
RefSeq Acc Id: XM_006253119   ⟹   XP_006253181
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81653,085,020 - 53,116,495 (-)NCBI
mRatBN7.21646,352,460 - 46,383,680 (-)NCBI
Rnor_6.01649,543,140 - 49,574,362 (-)NCBI
Rnor_5.01649,271,210 - 49,303,161 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253120   ⟹   XP_006253182
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81653,085,020 - 53,116,347 (-)NCBI
mRatBN7.21646,352,460 - 46,383,677 (-)NCBI
Rnor_6.01649,543,140 - 49,574,361 (-)NCBI
Rnor_5.01649,271,210 - 49,303,161 (-)NCBI
Sequence:
RefSeq Acc Id: NP_446102   ⟸   NM_053650
- UniProtKB: Q66HS7 (UniProtKB/Swiss-Prot),   O70208 (UniProtKB/Swiss-Prot),   D3ZFR7 (UniProtKB/TrEMBL),   A6JPQ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253182   ⟸   XM_006253120
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K9W2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253181   ⟸   XM_006253119
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JSM3 (UniProtKB/TrEMBL),   A6JPQ8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075153   ⟸   ENSRNOT00000085535
Ensembl Acc Id: ENSRNOP00000017054   ⟸   ENSRNOT00000017054
Ensembl Acc Id: ENSRNOP00000017568   ⟸   ENSRNOT00000017568
Protein Domains
LIM zinc-binding   PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q66HS7-F1-model_v2 AlphaFold Q66HS7 1-362 view protein structure

Transcriptome

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

Promoters
RGD ID:13700111
Promoter ID:EPDNEW_R10629
Type:single initiation site
Name:Pdlim3_1
Description:PDZ and LIM domain 3
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_6.01649,574,337 - 49,574,397EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620427 AgrOrtholog
BioCyc Gene G2FUF-11328 BioCyc
Ensembl Genes ENSRNOG00000012658 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000017054 ENTREZGENE
  ENSRNOT00000017568 ENTREZGENE
  ENSRNOT00000085535 ENTREZGENE
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot
  Cysteine Rich Protein UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7193873 IMAGE-MGC_LOAD
InterPro DUF4749 UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
  PDZ-LIM_domain UniProtKB/Swiss-Prot
  PDZ_sf UniProtKB/Swiss-Prot
  Zasp-like_motif UniProtKB/Swiss-Prot
  Znf_LIM UniProtKB/Swiss-Prot
KEGG Report rno:114108 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93100 IMAGE-MGC_LOAD
NCBI Gene 114108 ENTREZGENE
PANTHER PDZ AND LIM DOMAIN PROTEIN 3 UniProtKB/Swiss-Prot
  PDZ AND LIM DOMAIN PROTEIN ZASP UniProtKB/Swiss-Prot
Pfam DUF4749 UniProtKB/Swiss-Prot
  LIM UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
PhenoGen Pdlim3 PhenoGen
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000012658 RatGTEx
SMART LIM UniProtKB/Swiss-Prot
  PDZ UniProtKB/Swiss-Prot
  SM00735 UniProtKB/Swiss-Prot
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot
  SSF50156 UniProtKB/Swiss-Prot
UniProt A0A0G2JSM3 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K9W2 ENTREZGENE, UniProtKB/TrEMBL
  A6JPQ7 ENTREZGENE, UniProtKB/TrEMBL
  A6JPQ8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZFR7 ENTREZGENE, UniProtKB/TrEMBL
  O70208 ENTREZGENE
  PDLI3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O70208 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Pdlim3  PDZ and LIM domain 3    actinin alpha 2 associated LIM protein  Name updated 1299863 APPROVED
2002-08-07 Pdlim3  actinin alpha 2 associated LIM protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog may be a candidate gene for fascioscapulohumeral muscular dystrophy 634540
gene_domains contains an NH2-terminal PDZ domain and a COOH-terminal LIM motif  
gene_protein 39 kDa