Dlg4 (discs large MAGUK scaffold protein 4) - Rat Genome Database

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Gene: Dlg4 (discs large MAGUK scaffold protein 4) Rattus norvegicus
Analyze
Symbol: Dlg4
Name: discs large MAGUK scaffold protein 4
RGD ID: 68424
Description: Exhibits several functions, including PDZ domain binding activity; enzyme binding activity; and signaling receptor binding activity. A structural constituent of postsynaptic density. Involved in several processes, including modulation of chemical synaptic transmission; positive regulation of cellular component organization; and postsynapse organization. Localizes to several cellular components, including anchored component of postsynaptic density membrane; dendrite; and juxtaparanode region of axon. Colocalizes with voltage-gated potassium channel complex. Biomarker of Parkinson's disease and temporal lobe epilepsy. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability. Orthologous to human DLG4 (discs large MAGUK scaffold protein 4); PARTICIPATES IN glutamate signaling pathway; Huntington's disease pathway; INTERACTS WITH (S)-nicotine; 17beta-estradiol; 2,2',4,4',5,5'-hexachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: discs large homolog 4; discs, large homolog 4; discs, large homolog 4 (Drosophila); disks large homolog 4; Dlgh4; postsynaptic density protein 95; PSD-95; PSD95; SAP-90; Sap90; synapse-associated protein 90; synapse-associated protein SAP90
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21054,740,700 - 54,769,097 (+)NCBI
Rnor_6.0 Ensembl1056,627,411 - 56,653,599 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01056,625,845 - 56,655,543 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01056,369,703 - 56,400,662 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,864,459 - 56,890,626 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11056,878,081 - 56,904,246 (+)NCBI
Celera1053,894,685 - 53,920,691 (+)NCBICelera
Cytogenetic Map10q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-vinylcyclohexene dioxide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
agomelatine  (EXP)
all-trans-retinoic acid  (EXP,ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
androgen antagonist  (EXP)
atrazine  (EXP,ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
Butylparaben  (EXP)
cannabidiol  (EXP,ISO)
chaetocin  (EXP)
chlorohydrocarbon  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
citric acid  (EXP)
cocaine  (EXP,ISO)
curcumin  (EXP)
cyhalothrin  (EXP,ISO)
DDE  (EXP)
dexamethasone  (ISO)
dibutyl phthalate  (EXP)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzacamene  (EXP)
epoxiconazole  (EXP)
ethanol  (EXP,ISO)
fisetin  (ISO)
fluoranthene  (ISO)
fulvestrant  (ISO)
glutathione  (ISO)
hexachlorophene  (ISO)
ibuprofen  (EXP)
indometacin  (ISO)
isoflurane  (EXP)
ketamine  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
linuron  (EXP)
lipopolysaccharide  (ISO)
LY294002  (ISO)
memantine  (EXP)
methoxychlor  (ISO)
morphine  (EXP,ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
nicotine  (EXP,ISO)
oxidopamine  (EXP)
paracetamol  (EXP)
paraquat  (EXP)
PCB138  (ISO)
PhIP  (ISO)
pirinixic acid  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
resveratrol  (EXP)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
SB 431542  (ISO)
silver atom  (EXP,ISO)
silver(0)  (EXP,ISO)
sirolimus  (ISO)
sodium arsenite  (EXP)
sodium fluoride  (EXP,ISO)
streptozocin  (EXP)
sulfur dioxide  (EXP)
sunitinib  (ISO)
thapsigargin  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
AMPA glutamate receptor clustering  (IBA,IMP)
cell-cell adhesion  (IBA)
cellular response to potassium ion  (IEA,ISO)
chemical synaptic transmission  (IBA)
dendritic spine morphogenesis  (IEA,IMP,ISO)
dendritic spine organization  (IMP)
establishment of protein localization  (IEA,ISO,ISS)
locomotory exploration behavior  (IEA,ISO,ISS)
maintenance of postsynaptic density structure  (IEA)
negative regulation of receptor internalization  (IDA)
neuromuscular process controlling balance  (IEA,ISO,ISS)
neuronal ion channel clustering  (TAS)
neurotransmitter receptor localization to postsynaptic specialization membrane  (IEA,ISO)
positive regulation of AMPA glutamate receptor clustering  (IMP)
positive regulation of cytosolic calcium ion concentration  (IMP)
positive regulation of excitatory postsynaptic potential  (IDA,IMP)
positive regulation of neuron projection arborization  (IGI)
positive regulation of protein tyrosine kinase activity  (IMP)
positive regulation of synaptic transmission  (IDA)
postsynaptic neurotransmitter receptor diffusion trapping  (IBA,IMP)
protein localization to synapse  (IMP,ISO)
protein-containing complex assembly  (IEA,ISO,ISS)
receptor clustering  (IBA)
receptor localization to synapse  (IBA,IMP)
regulation of grooming behavior  (IEA,ISO,ISS)
regulation of long-term neuronal synaptic plasticity  (IEA,ISO,ISS)
regulation of neuronal synaptic plasticity  (IMP)
regulation of NMDA receptor activity  (IDA,IMP)
social behavior  (IEA,ISO,ISS)
synaptic vesicle maturation  (IEA,ISO,ISS)
vocalization behavior  (IEA,ISO,ISS)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

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Additional References at PubMed
PMID:7477295   PMID:9286858   PMID:9395480   PMID:9581761   PMID:9581762   PMID:9620694   PMID:9892651   PMID:10318831   PMID:10521485   PMID:11122378   PMID:11487731   PMID:12063253  
PMID:12065411   PMID:12115694   PMID:12151521   PMID:12427827   PMID:12563010   PMID:12576494   PMID:12675619   PMID:12682061   PMID:12972605   PMID:14529711   PMID:14529712   PMID:14610362  
PMID:14622577   PMID:14645471   PMID:14732465   PMID:14749436   PMID:14760703   PMID:15044063   PMID:15071120   PMID:15082773   PMID:15207857   PMID:15317856   PMID:15458844   PMID:15458847  
PMID:15458848   PMID:15496675   PMID:15574735   PMID:15603741   PMID:15629447   PMID:15665879   PMID:15673434   PMID:15723836   PMID:15729360   PMID:15748150   PMID:15883194   PMID:15978582  
PMID:16520334   PMID:16606358   PMID:16814779   PMID:16815335   PMID:16818724   PMID:16828986   PMID:16980967   PMID:17018287   PMID:17021172   PMID:17046693   PMID:17093100   PMID:17114649  
PMID:17118964   PMID:17237775   PMID:17348686   PMID:17360496   PMID:17437338   PMID:17459877   PMID:17486105   PMID:17646177   PMID:17670980   PMID:17904695   PMID:17938206   PMID:17988632  
PMID:18053028   PMID:18093743   PMID:18095156   PMID:18215622   PMID:18248606   PMID:18272690   PMID:18279309   PMID:18307989   PMID:18392731   PMID:18579798   PMID:18617669   PMID:18700282  
PMID:18721130   PMID:18723686   PMID:19075115   PMID:19098102   PMID:19104036   PMID:19166515   PMID:19169250   PMID:19332546   PMID:19428647   PMID:19449206   PMID:19457061   PMID:19629758  
PMID:19632332   PMID:19726645   PMID:19828436   PMID:20623763   PMID:20831617   PMID:20842722   PMID:20865734   PMID:20886623   PMID:20952458   PMID:21144999   PMID:21185848   PMID:21324980  
PMID:21645852   PMID:21668967   PMID:21719075   PMID:21865455   PMID:21911612   PMID:21920314   PMID:21927888   PMID:22022532   PMID:22114157   PMID:22233891   PMID:22375001   PMID:22632720  
PMID:22807451   PMID:22871113   PMID:23001297   PMID:23038781   PMID:23049922   PMID:23183381   PMID:23239444   PMID:23267080   PMID:23300088   PMID:23321072   PMID:23342049   PMID:23395180  
PMID:23395379   PMID:23424281   PMID:23516288   PMID:23595732   PMID:23719161   PMID:23791195   PMID:23800465   PMID:23891900   PMID:23946397   PMID:23986251   PMID:24035762   PMID:24058620  
PMID:24069373   PMID:24298137   PMID:24350898   PMID:24464040   PMID:24491052   PMID:24608243   PMID:24705401   PMID:24705785   PMID:24794856   PMID:24981431   PMID:25393018   PMID:25399920  
PMID:25565773   PMID:25966954   PMID:26147235   PMID:26223010   PMID:26257100   PMID:26365118   PMID:26479588   PMID:26604311   PMID:26609151   PMID:27321669   PMID:27330081   PMID:27457929  
PMID:27653801   PMID:27759003   PMID:28553222   PMID:28698933   PMID:28701415   PMID:28790172   PMID:28823933   PMID:29082919   PMID:29118110   PMID:29281827   PMID:29490264   PMID:29577884  
PMID:29592780   PMID:30053369   PMID:30108200   PMID:30193808   PMID:30214057   PMID:30605082   PMID:32029829   PMID:32157575   PMID:32197489   PMID:32386416  


Genomics

Comparative Map Data
Dlg4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21054,740,700 - 54,769,097 (+)NCBI
Rnor_6.0 Ensembl1056,627,411 - 56,653,599 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01056,625,845 - 56,655,543 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01056,369,703 - 56,400,662 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41056,864,459 - 56,890,626 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11056,878,081 - 56,904,246 (+)NCBI
Celera1053,894,685 - 53,920,691 (+)NCBICelera
Cytogenetic Map10q24NCBI
DLG4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl177,187,187 - 7,219,841 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl177,187,169 - 7,219,841 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl177,189,890 - 7,219,841 (-)EnsemblGRCh38hg38GRCh38
GRCh38177,187,187 - 7,220,050 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37177,090,506 - 7,123,369 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36177,033,933 - 7,063,781 (-)NCBINCBI36hg18NCBI36
Build 34177,033,935 - 7,063,745NCBI
Celera177,117,875 - 7,148,003 (-)NCBI
Cytogenetic Map17p13.1NCBI
HuRef176,984,911 - 7,015,359 (-)NCBIHuRef
CHM1_1177,102,006 - 7,132,134 (-)NCBICHM1_1
Dlg4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391169,908,029 - 69,938,107 (+)NCBIGRCm39mm39
GRCm39 Ensembl1169,907,768 - 69,938,348 (+)Ensembl
GRCm381170,017,203 - 70,045,535 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1170,016,942 - 70,047,522 (+)EnsemblGRCm38mm10GRCm38
MGSCv371169,832,107 - 69,859,034 (+)NCBIGRCm37mm9NCBIm37
MGSCv361169,835,059 - 69,860,963 (+)NCBImm8
Celera1177,566,529 - 77,594,216 (+)NCBICelera
Cytogenetic Map11B3NCBI
Dlg4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554679,690,469 - 9,715,872 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554679,691,733 - 9,715,872 (+)NCBIChiLan1.0ChiLan1.0
DLG4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1177,207,483 - 7,236,000 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl177,207,483 - 7,235,985 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0177,219,911 - 7,247,509 (-)NCBIMhudiblu_PPA_v0panPan3
DLG4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1532,165,399 - 32,175,600 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl532,163,594 - 32,188,126 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha532,303,501 - 32,327,281 (-)NCBI
ROS_Cfam_1.0532,271,402 - 32,294,586 (-)NCBI
UMICH_Zoey_3.1532,236,680 - 32,259,896 (-)NCBI
UNSW_CanFamBas_1.0532,195,151 - 32,218,943 (-)NCBI
UU_Cfam_GSD_1.0532,372,643 - 32,395,864 (-)NCBI
Dlg4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560247,013,899 - 47,039,640 (-)NCBI
SpeTri2.0NW_004936595487,918 - 513,843 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DLG4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1252,550,141 - 52,575,156 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11252,550,138 - 52,574,021 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23139,824,633 - 139,849,233 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DLG4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1166,562,953 - 6,592,247 (-)NCBI
ChlSab1.1 Ensembl166,562,691 - 6,590,867 (-)Ensembl
Dlg4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247869,811,201 - 9,835,660 (-)NCBI

Position Markers
UniSTS:224404  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21054,750,265 - 54,750,409 (+)MAPPER
Rnor_6.01056,636,712 - 56,636,855NCBIRnor6.0
Rnor_5.01056,381,831 - 56,381,974UniSTSRnor5.0
RGSC_v3.41056,873,736 - 56,873,879UniSTSRGSC3.4
Celera1053,903,797 - 53,903,940UniSTS
Cytogenetic Map10q24UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103658437366539843Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103658456066015527Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)104051404485514044Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)104051404485514044Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104318865981042642Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104370495588704955Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104684834691848346Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104684834691848346Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104684834691848346Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)105063833795638337Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)105128920384596393Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)105128920384596393Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)105128920384596393Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)105128920384596393Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)105128920384596393Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105310471898104718Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1053621375112626471Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1053621375112626471Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105362581598939209Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105363748594807701Rat
1578762Toxo1Toxoplasma gondii resistance QTL 1brain integrity trait (VT:0010579)percentage of study population displaying Toxoplasma gondii brain cysts at a point in time (CMO:0002028)105405761661300905Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)1055224855100224855Rat
1354585Eae18aExperimental allergic encephalomyelitis QTL 18a7.50.0004nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)105567897660404791Rat
2306787Ean3Experimental allergic neuritis QTL 33.1nervous system integrity trait (VT:0010566)body weight loss (CMO:0001399)105567897669385767Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1055678976112626471Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)1055679084102427604Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:90
Count of miRNA genes:75
Interacting mature miRNAs:76
Transcripts:ENSRNOT00000068493
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 20 7 6 6 74 20 31 5
Low 3 23 47 32 19 32 8 11 15 10 6 8
Below cutoff 3 3 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000068493   ⟹   ENSRNOP00000059045
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1056,627,547 - 56,653,599 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089108   ⟹   ENSRNOP00000074184
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1056,627,411 - 56,652,819 (+)Ensembl
RefSeq Acc Id: NM_019621   ⟹   NP_062567
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,741,101 - 54,767,156 (+)NCBI
Rnor_6.01056,627,547 - 56,653,602 (+)NCBI
Rnor_5.01056,369,703 - 56,400,662 (+)NCBI
RGSC_v3.41056,864,459 - 56,890,626 (+)RGD
Celera1053,894,685 - 53,920,691 (+)RGD
Sequence:
RefSeq Acc Id: XM_006246684   ⟹   XP_006246746
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01056,625,845 - 56,655,543 (+)NCBI
Rnor_5.01056,369,703 - 56,400,662 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246687   ⟹   XP_006246749
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,740,700 - 54,769,097 (+)NCBI
Rnor_6.01056,627,172 - 56,655,543 (+)NCBI
Rnor_5.01056,369,703 - 56,400,662 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767809   ⟹   XP_008766031
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,749,604 - 54,769,097 (+)NCBI
Rnor_6.01056,625,895 - 56,655,543 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597176   ⟹   XP_017452665
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01056,635,452 - 56,655,543 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039085766   ⟹   XP_038941694
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,749,604 - 54,769,097 (+)NCBI
RefSeq Acc Id: XM_039085767   ⟹   XP_038941695
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,746,556 - 54,769,097 (+)NCBI
RefSeq Acc Id: XM_039085768   ⟹   XP_038941696
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,752,176 - 54,769,097 (+)NCBI
RefSeq Acc Id: XR_005489771
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21054,749,603 - 54,769,097 (+)NCBI
RefSeq Acc Id: XR_357666
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01056,625,895 - 56,655,543 (+)NCBI
Rnor_5.01056,369,703 - 56,400,662 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_062567   ⟸   NM_019621
- UniProtKB: P31016 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006246746   ⟸   XM_006246684
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006246749   ⟸   XM_006246687
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008766031   ⟸   XM_008767809
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017452665   ⟸   XM_017597176
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000074184   ⟸   ENSRNOT00000089108
RefSeq Acc Id: ENSRNOP00000059045   ⟸   ENSRNOT00000068493
RefSeq Acc Id: XP_038941695   ⟸   XM_039085767
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038941694   ⟸   XM_039085766
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038941696   ⟸   XM_039085768
- Peptide Label: isoform X4
Protein Domains
Guanylate kinase-like   PDZ   SH3

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68424 AgrOrtholog
Ensembl Genes ENSRNOG00000018526 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000059045 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074184 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000068493 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000089108 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DLG1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DLG1_PEST_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GK/Ca_channel_bsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Guanylate_kin-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Guanylate_kinase_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_assoc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29495 UniProtKB/Swiss-Prot
NCBI Gene 29495 ENTREZGENE
Pfam Guanylate_kin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAGUK_N_PEST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_assoc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Dlg4 PhenoGen
PIRSF MAGUK_DLGH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE GUANYLATE_KINASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GUANYLATE_KINASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART GuKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAGUK_N_PEST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC229371
UniProt A0A0G2K7F5_RAT UniProtKB/TrEMBL
  DLG4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary P97631 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-01 Dlg4  discs large MAGUK scaffold protein 4  Dlg4  discs large homolog 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-27 Dlg4  discs large homolog 4  Dlg4  discs, large homolog 4 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Dlg4  discs, large homolog 4 (Drosophila)  Dlgh4  discs, large homolog 4 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Dlgh4  discs, large homolog 4 (Drosophila)       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the postsynaptic density 68239
gene_domains contains a potential cytoskeletal region consisting of three repeats of 90 amino acids in length, a domain with similarity to SH3 and a carboxyl-terminal domain homologous to yeast guanylate kinase 68239