Pdlim7 (PDZ and LIM domain 7) - Rat Genome Database

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Gene: Pdlim7 (PDZ and LIM domain 7) Rattus norvegicus
Analyze
Symbol: Pdlim7
Name: PDZ and LIM domain 7
RGD ID: 628769
Description: Predicted to enable actin binding activity and muscle alpha-actinin binding activity. Involved in positive regulation of osteoblast differentiation. Predicted to be located in several cellular components, including focal adhesion; nucleoplasm; and ruffle. Predicted to be part of filamentous actin. Predicted to be active in Z disc; adherens junction; and stress fiber. Orthologous to human PDLIM7 (PDZ and LIM domain 7); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Enigma; enigma (LIM domain protein); LIM mineralization protein; LIM mineralization protein 2; LMP; PDZ and LIM domain protein 7
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
GRCr8179,129,603 - 9,144,956 (+)NCBIGRCr8
mRatBN7.2179,124,565 - 9,139,814 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl179,124,649 - 9,139,811 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx179,140,638 - 9,155,826 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,670,658 - 10,685,851 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0179,137,028 - 9,152,216 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,653,510 - 9,668,715 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,653,561 - 9,668,712 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01711,762,249 - 11,777,443 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41715,168,835 - 15,183,983 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11715,168,834 - 15,183,983 (+)NCBI
Celera179,203,215 - 9,218,359 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylsalicylic acid  (ISO)
aconitine  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphotericin B  (ISO)
aristolochic acid A  (ISO)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP,ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
FR900359  (ISO)
genistein  (ISO)
glycidyl methacrylate  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
L-methionine  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
methamphetamine  (EXP)
methimazole  (EXP)
methotrexate  (ISO)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
N-nitrosodiethylamine  (ISO)
nitrofen  (EXP)
O-methyleugenol  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP,ISO)
progesterone  (ISO)
propanal  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
Soman  (EXP)
succimer  (ISO)
sulfadimethoxine  (EXP)
sulindac  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
zinc sulfate  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
actin cytoskeleton  (ISO)
adherens junction  (IBA,IEA,ISO)
cytoplasm  (ISO)
filamentous actin  (IBA,IEA)
focal adhesion  (IEA,ISO)
nucleoplasm  (IEA,ISO)
ruffle  (IEA,ISO)
stress fiber  (IBA,IEA,ISO)
Z disc  (IBA,IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. LMP-1, a LIM-domain protein, mediates BMP-6 effects on bone formation. Boden SD, etal., Endocrinology 1998 Dec;139(12):5125-34.
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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15219810   PMID:15489334   PMID:15946664   PMID:17964547   PMID:25468996   PMID:25677945  


Genomics

Comparative Map Data
Pdlim7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8179,129,603 - 9,144,956 (+)NCBIGRCr8
mRatBN7.2179,124,565 - 9,139,814 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl179,124,649 - 9,139,811 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx179,140,638 - 9,155,826 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01710,670,658 - 10,685,851 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0179,137,028 - 9,152,216 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0179,653,510 - 9,668,715 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl179,653,561 - 9,668,712 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01711,762,249 - 11,777,443 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41715,168,835 - 15,183,983 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11715,168,834 - 15,183,983 (+)NCBI
Celera179,203,215 - 9,218,359 (+)NCBICelera
Cytogenetic Map17p14NCBI
PDLIM7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385177,483,394 - 177,497,604 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5177,483,394 - 177,497,606 (-)EnsemblGRCh38hg38GRCh38
GRCh375176,910,395 - 176,924,605 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365176,843,001 - 176,857,208 (-)NCBINCBI36Build 36hg18NCBI36
Celera5171,577,128 - 171,591,311 (+)NCBICelera
Cytogenetic Map5q35.3NCBI
HuRef5171,830,716 - 171,845,067 (-)NCBIHuRef
CHM1_15176,343,378 - 176,357,560 (-)NCBICHM1_1
T2T-CHM13v2.05178,026,382 - 178,040,598 (-)NCBIT2T-CHM13v2.0
Pdlim7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391355,645,300 - 55,661,281 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1355,643,608 - 55,661,489 (-)EnsemblGRCm39 Ensembl
GRCm381355,497,487 - 55,513,473 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1355,495,795 - 55,513,676 (-)EnsemblGRCm38mm10GRCm38
MGSCv371355,598,848 - 55,614,800 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361355,516,395 - 55,523,056 (-)NCBIMGSCv36mm8
Celera1356,551,572 - 56,567,561 (-)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1330.06NCBI
Pdlim7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540829,718,644 - 29,734,085 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540829,718,830 - 29,734,085 (-)NCBIChiLan1.0ChiLan1.0
PDLIM7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24172,567,266 - 172,581,487 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15170,706,807 - 170,721,024 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05172,784,656 - 172,798,875 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15179,846,476 - 179,860,619 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5179,846,476 - 179,860,619 (-)Ensemblpanpan1.1panPan2
LOC491973
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X59,721,991 - 59,723,642 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX50,736,749 - 50,738,303 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X60,960,763 - 60,962,313 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X58,668,665 - 58,670,214 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X60,274,788 - 60,276,305 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X59,866,463 - 59,868,005 (+)NCBIUU_Cfam_GSD_1.0
Pdlim7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213122,734,771 - 122,748,494 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365971,759,555 - 1,773,424 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365971,759,676 - 1,773,335 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDLIM7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl280,452,706 - 80,472,658 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1280,453,013 - 80,472,660 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PDLIM7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12379,494,695 - 79,508,950 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2379,493,927 - 79,508,714 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607510,687,138 - 10,701,197 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdlim7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473312,591,883 - 12,607,992 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473312,591,883 - 12,607,992 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pdlim7
50 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:167
Count of miRNA genes:114
Interacting mature miRNAs:122
Transcripts:ENSRNOT00000018899
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1581553Pur14Proteinuria QTL 145.30.0001urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17797996816317111Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat

Markers in Region
RH129693  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2179,131,186 - 9,131,404 (+)MAPPERmRatBN7.2
Rnor_6.0179,660,087 - 9,660,304NCBIRnor6.0
Rnor_5.01711,768,819 - 11,769,036UniSTSRnor5.0
RGSC_v3.41715,175,359 - 15,175,576UniSTSRGSC3.4
Celera179,209,739 - 9,209,956UniSTS
RH 3.4 Map1781.0UniSTS
Cytogenetic Map17p14UniSTS
RH137205  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2179,139,238 - 9,139,588 (+)MAPPERmRatBN7.2
Rnor_6.0179,668,140 - 9,668,489NCBIRnor6.0
Rnor_5.01711,776,871 - 11,777,220UniSTSRnor5.0
RGSC_v3.41715,183,411 - 15,183,760UniSTSRGSC3.4
Celera179,217,787 - 9,218,136UniSTS
RH 3.4 Map1777.9UniSTS
Cytogenetic Map17p14UniSTS


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 41 18 10 14 10 8 11 66 27 33 11 8
Low 2 39 31 5 31 8 8 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_173125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600470 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095432 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063276124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005495240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC121413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF095585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF529210 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000018899   ⟹   ENSRNOP00000018899
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl179,124,650 - 9,139,809 (+)Ensembl
Rnor_6.0 Ensembl179,653,561 - 9,668,712 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095062   ⟹   ENSRNOP00000093838
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl179,124,663 - 9,139,800 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000095625   ⟹   ENSRNOP00000092912
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl179,124,649 - 9,139,811 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115581   ⟹   ENSRNOP00000092278
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl179,125,327 - 9,131,408 (+)Ensembl
RefSeq Acc Id: NM_173125   ⟹   NP_775148
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,808 - 9,144,956 (+)NCBI
mRatBN7.2179,124,663 - 9,139,811 (+)NCBI
Rnor_6.0179,653,563 - 9,668,712 (+)NCBI
Rnor_5.01711,762,249 - 11,777,443 (+)NCBI
RGSC_v3.41715,168,835 - 15,183,983 (+)RGD
Celera179,203,215 - 9,218,359 (+)RGD
Sequence:
RefSeq Acc Id: XM_006253610   ⟹   XP_006253672
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,144,956 (+)NCBI
mRatBN7.2179,124,565 - 9,139,814 (+)NCBI
Rnor_6.0179,653,510 - 9,668,715 (+)NCBI
Rnor_5.01711,762,249 - 11,777,443 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253611   ⟹   XP_006253673
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,136,556 (+)NCBI
mRatBN7.2179,124,565 - 9,131,411 (+)NCBI
Rnor_6.0179,653,510 - 9,660,311 (+)NCBI
Rnor_5.01711,762,249 - 11,777,443 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253612   ⟹   XP_006253674
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,136,556 (+)NCBI
mRatBN7.2179,124,566 - 9,131,411 (+)NCBI
Rnor_6.0179,653,510 - 9,660,310 (+)NCBI
Rnor_5.01711,762,249 - 11,777,443 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039095428   ⟹   XP_038951356
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,144,956 (+)NCBI
mRatBN7.2179,124,565 - 9,139,814 (+)NCBI
RefSeq Acc Id: XM_039095429   ⟹   XP_038951357
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,143,892 (+)NCBI
mRatBN7.2179,124,565 - 9,138,738 (+)NCBI
RefSeq Acc Id: XM_039095430   ⟹   XP_038951358
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,136,556 (+)NCBI
mRatBN7.2179,124,565 - 9,131,411 (+)NCBI
RefSeq Acc Id: XM_039095432   ⟹   XP_038951360
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,134,974 - 9,144,956 (+)NCBI
mRatBN7.2179,129,829 - 9,139,814 (+)NCBI
RefSeq Acc Id: XM_039095433   ⟹   XP_038951361
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,134,316 - 9,144,956 (+)NCBI
mRatBN7.2179,129,169 - 9,139,814 (+)NCBI
RefSeq Acc Id: XM_063276122   ⟹   XP_063132192
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,143,892 (+)NCBI
RefSeq Acc Id: XM_063276123   ⟹   XP_063132193
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,130,379 - 9,144,956 (+)NCBI
RefSeq Acc Id: XM_063276124   ⟹   XP_063132194
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,130,386 - 9,144,956 (+)NCBI
RefSeq Acc Id: XR_005495240
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8179,129,603 - 9,144,465 (+)NCBI
mRatBN7.2179,124,565 - 9,139,814 (+)NCBI
Protein Sequences
Protein RefSeqs NP_775148 (Get FASTA)   NCBI Sequence Viewer  
  XP_006253672 (Get FASTA)   NCBI Sequence Viewer  
  XP_006253673 (Get FASTA)   NCBI Sequence Viewer  
  XP_006253674 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951356 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951357 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951358 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951360 (Get FASTA)   NCBI Sequence Viewer  
  XP_038951361 (Get FASTA)   NCBI Sequence Viewer  
  XP_063132192 (Get FASTA)   NCBI Sequence Viewer  
  XP_063132193 (Get FASTA)   NCBI Sequence Viewer  
  XP_063132194 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD13197 (Get FASTA)   NCBI Sequence Viewer  
  AAH78693 (Get FASTA)   NCBI Sequence Viewer  
  AAM94407 (Get FASTA)   NCBI Sequence Viewer  
  EDL93972 (Get FASTA)   NCBI Sequence Viewer  
  EDL93973 (Get FASTA)   NCBI Sequence Viewer  
  EDL93974 (Get FASTA)   NCBI Sequence Viewer  
  EDL93975 (Get FASTA)   NCBI Sequence Viewer  
  EDL93976 (Get FASTA)   NCBI Sequence Viewer  
  EDL93977 (Get FASTA)   NCBI Sequence Viewer  
  EDL93978 (Get FASTA)   NCBI Sequence Viewer  
  EDL93979 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000018899
  ENSRNOP00000018899.3
  ENSRNOP00000092278
  ENSRNOP00000092278.1
  ENSRNOP00000092912
  ENSRNOP00000092912.1
  ENSRNOP00000093838.1
GenBank Protein Q9Z1Z9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_775148   ⟸   NM_173125
- UniProtKB: Q9Z1Z9 (UniProtKB/Swiss-Prot),   A6KAR4 (UniProtKB/TrEMBL),   A0A8I6AKU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253672   ⟸   XM_006253610
- Peptide Label: isoform X2
- UniProtKB: A0A8I6GK07 (UniProtKB/TrEMBL),   A0A8I6AKU2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253673   ⟸   XM_006253611
- Peptide Label: isoform X7
- UniProtKB: A0A8I6AH90 (UniProtKB/TrEMBL),   A6KAR6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006253674   ⟸   XM_006253612
- Peptide Label: isoform X9
- UniProtKB: A6KAR7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018899   ⟸   ENSRNOT00000018899
RefSeq Acc Id: XP_038951356   ⟸   XM_039095428
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AKU2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951357   ⟸   XM_039095429
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038951358   ⟸   XM_039095430
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038951361   ⟸   XM_039095433
- Peptide Label: isoform X8
- UniProtKB: A6KAS0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038951360   ⟸   XM_039095432
- Peptide Label: isoform X8
- UniProtKB: A6KAS0 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000092278   ⟸   ENSRNOT00000115581
RefSeq Acc Id: ENSRNOP00000093838   ⟸   ENSRNOT00000095062
RefSeq Acc Id: ENSRNOP00000092912   ⟸   ENSRNOT00000095625
RefSeq Acc Id: XP_063132192   ⟸   XM_063276122
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063132193   ⟸   XM_063276123
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063132194   ⟸   XM_063276124
- Peptide Label: isoform X5
Protein Domains
LIM zinc-binding   PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z1Z9-F1-model_v2 AlphaFold Q9Z1Z9 1-457 view protein structure

Transcriptome

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

Promoters
RGD ID:13700304
Promoter ID:EPDNEW_R10826
Type:single initiation site
Name:Pdlim7_1
Description:PDZ and LIM domain 7
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_6.0179,653,547 - 9,653,607EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628769 AgrOrtholog
BioCyc Gene G2FUF-10208 BioCyc
Ensembl Genes ENSRNOG00000013653 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018899 ENTREZGENE
  ENSRNOT00000018899.4 UniProtKB/TrEMBL
  ENSRNOT00000095062.1 UniProtKB/TrEMBL
  ENSRNOT00000095625.1 UniProtKB/TrEMBL
  ENSRNOT00000115581.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cysteine Rich Protein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7121395 IMAGE-MGC_LOAD
InterPro PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:286908 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93077 IMAGE-MGC_LOAD
NCBI Gene 286908 ENTREZGENE
PANTHER PDZ AND LIM DOMAIN PROTEIN 7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ AND LIM DOMAIN PROTEIN ZASP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pdlim7 PhenoGen
PROSITE LIM_DOMAIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIM_DOMAIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013653 RatGTEx
SMART LIM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AH90 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AKU2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GK07 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2UJ95_RAT UniProtKB/TrEMBL
  A6KAR4 ENTREZGENE, UniProtKB/TrEMBL
  A6KAR6 ENTREZGENE, UniProtKB/TrEMBL
  A6KAR7 ENTREZGENE, UniProtKB/TrEMBL
  A6KAR8_RAT UniProtKB/TrEMBL
  A6KAR9_RAT UniProtKB/TrEMBL
  A6KAS0 ENTREZGENE, UniProtKB/TrEMBL
  A6KAS1_RAT UniProtKB/TrEMBL
  PDLI7_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-12-14 Pdlim7  PDZ and LIM domain 7  Enigma  enigma (LIM domain protein)  Symbol and Name updated 1299863 APPROVED
2003-02-27 Enigma  enigma (LIM domain protein)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation induced by glucocorticoid treatment 632731