Ciita (class II transactivator) - Rat Genome Database

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Gene: Ciita (class II transactivator) Mus musculus
Analyze
Symbol: Ciita
Name: class II transactivator
RGD ID: 734236
MGI Page MGI
Description: Predicted to enable DNA-binding transcription factor binding activity and transcription cis-regulatory region binding activity. Involved in positive regulation of transcription by RNA polymerase II and response to type II interferon. Acts upstream of or within negative regulation of DNA-templated transcription. Predicted to be located in PML body; cell surface; and cytosol. Is expressed in bladder; central nervous system; and retina. Used to study MHC class II deficiency and osteoporosis. Human ortholog(s) of this gene implicated in Addison's disease; MHC class II deficiency; autoimmune disease (multiple); and myocardial infarction. Orthologous to human CIITA (class II major histocompatibility complex transactivator).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: C2t; C2ta; EG669998; Gm9475; MGC130299; MHC class II transactivator; Mhc2ta; predicted gene 9475
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,297,877 - 10,348,928 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,297,923 - 10,346,282 (+)EnsemblGRCm39 Ensembl
GRCm381610,480,014 - 10,531,064 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,480,059 - 10,528,418 (+)EnsemblGRCm38mm10GRCm38
MGSCv371610,488,372 - 10,527,657 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361610,401,857 - 10,441,142 (+)NCBIMGSCv36mm8
Celera1611,120,578 - 11,160,248 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map165.65NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
4,4'-sulfonyldiphenol  (EXP)
4-hydroxyphenyl retinamide  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
allethrin  (ISO)
ammonium chloride  (ISO)
amphetamine  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (EXP,ISO)
bis(2-chloroethyl) sulfide  (EXP)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (EXP)
butanal  (ISO)
capsaicin  (EXP)
carbon nanotube  (EXP)
chloroprene  (EXP)
Cuprizon  (ISO)
cyhalothrin  (ISO)
cypermethrin  (ISO)
diarsenic trioxide  (ISO)
dichloromethane  (ISO)
dimethyl fumarate  (ISO)
dimethylarsinic acid  (EXP)
ethylbenzene  (ISO)
fenvalerate  (ISO)
folic acid  (EXP)
gentamycin  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (ISO)
melphalan  (ISO)
methoxychlor  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (EXP)
nevirapine  (ISO)
nickel atom  (ISO)
Nor-9-carboxy-delta9-THC  (ISO)
ozone  (EXP)
paracetamol  (ISO)
paraquat  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pirinixic acid  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
pyrethrins  (ISO)
ritonavir  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
simvastatin  (ISO)
sodium arsenate  (EXP)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
T-2 toxin  (EXP)
tamibarotene  (ISO)
testosterone  (ISO)
thioacetamide  (ISO)
titanium dioxide  (EXP)
trichloroethene  (ISO)
triptonide  (EXP)
tungsten  (EXP)
valproic acid  (ISO)
verapamil  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal B cell physiology  (IAGP)
abnormal CD4-positive T cell differentiation  (IEA)
abnormal CD4-positive, alpha-beta T cell physiology  (IAGP)
abnormal CD8-positive, alpha-beta T cell differentiation  (IEA)
abnormal circulating glucose level  (IAGP)
abnormal cytokine secretion  (IAGP)
abnormal dendritic cell physiology  (IAGP)
abnormal glucose homeostasis  (IAGP)
abnormal immune system physiology  (IAGP)
abnormal immunoglobulin level  (IAGP)
abnormal inflammatory response  (IAGP)
abnormal level of surface class II molecules  (IAGP)
abnormal lymphocyte physiology  (IAGP)
abnormal MHC II cell surface expression on macrophages  (IAGP)
abnormal popliteal lymph node morphology  (IAGP)
abnormal susceptibility to infection  (IAGP)
abnormal T cell differentiation  (IAGP)
abnormal T cell physiology  (IAGP)
abnormal T cell subpopulation ratio  (IAGP)
abnormal T-helper 1 physiology  (IAGP)
abnormal trabecular bone morphology  (IAGP)
absent CD4-positive, alpha-beta T cells  (IAGP)
decreased bone trabecula number  (IAGP)
decreased CD4-positive, alpha-beta T cell number  (IAGP)
decreased dendritic cell number  (IAGP)
decreased IgG level  (IAGP)
decreased single-positive T cell number  (IAGP)
decreased susceptibility to autoimmune diabetes  (IAGP)
decreased susceptibility to experimental autoimmune encephalomyelitis  (IAGP)
decreased susceptibility to parasitic infection  (IAGP)
decreased T cell proliferation  (IAGP)
decreased trabecular bone volume  (IAGP)
impaired humoral immune response  (IEA)
increased bone resorption  (IAGP)
increased bone trabecular spacing  (IAGP)
increased CD4-positive, alpha-beta T cell number  (IAGP)
increased CD8-positive, alpha-beta T cell number  (IAGP)
increased circulating type I collagen C-terminal telopeptide level  (IAGP)
increased double-positive T cell number  (IAGP)
increased IgM level  (IAGP)
increased osteoclast cell number  (IAGP)
increased susceptibility to parasitic infection  (IAGP)
insulitis  (IAGP)
no abnormal phenotype detected  (IAGP)
osteoporosis  (IAGP)
pancreas inflammation  (IAGP)
periinsulitis  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Promoter polymorphism rs3087456 in the MHC class II transactivator gene is not associated with susceptibility for selected autoimmune diseases in German patient groups. Akkad DA, etal., Int J Immunogenet. 2006 Feb;33(1):59-61.
2. Two novel mutations in the MHC class II transactivator CIITA in a second patient from MHC class II deficiency complementation group A. Bontron S, etal., Hum Genet. 1997 Apr;99(4):541-6.
3. Successful treatment of experimental autoimmune myocarditis by adenovirus-mediated gene transfer of antisense CIITA. Cai G, etal., J Mol Cell Cardiol. 2005 Apr;38(4):593-605.
4. Vra4 congenic rats with allelic differences in the class II transactivator gene display altered susceptibility to experimental autoimmune encephalomyelitis. Harnesk K, etal., J Immunol. 2008 Mar 1;180(5):3289-96.
5. Overexpression of CIITA in T cells aggravates Th2-mediated colitis in mice. Kim TW, etal., J Korean Med Sci. 2006 Oct;21(5):877-82.
6. Single nucleotide polymorphisms in the gene encoding the major histocompatibility complex class II transactivator (CIITA) in systemic lupus erythematosus. Koizumi K, etal., Ann Rheum Dis. 2005 Jun;64(6):947-50.
7. Major histocompatibility complex class II transactivator inhibits cysteine-rich 61 expression in osteoblastic cells and its implication in the pathogenesis of periapical lesions. Lee YL, etal., J Endod. 2010 Jun;36(6):1021-5. doi: 10.1016/j.joen.2010.03.009. Epub 2010 Apr 21.
8. Polymorphism in the MHC2TA gene is associated with features of the metabolic syndrome and cardiovascular mortality. Lindholm E, etal., PLoS One. 2006 Dec 20;1:e64.
9. A polymorphic variant in the MHC2TA gene is not associated with systemic lupus erythematosus. Linga-Reddy MV, etal., Tissue Antigens. 2007 Nov;70(5):412-4. Epub 2007 Aug 17.
10. Chromosomal region 16p13: further evidence of increased predisposition to immune diseases. Martinez A, etal., Ann Rheum Dis. 2010 Jan;69(1):309-11. Epub .
11. MGDs mouse GO annotations MGD data from the GO Consortium
12. MGD IEA MGD IEA
13. The MHC2TA-168A/G and +1614G/C polymorphisms and risk for multiple sclerosis or chronic inflammatory arthropathies. O'Doherty C, etal., Tissue Antigens. 2007 Sep;70(3):247-51.
14. Protective effect of A at position - 168 in the type III promoter of the MHCIITA gene in systemic lupus erythematosus. Okamoto H, etal., Ann Rheum Dis. 2007 Sep;66(9):1263-4.
15. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
16. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
17. Comparative analysis of apoptosis and inflammation genes of mice and humans. Reed JC, etal., Genome Res 2003 Jun;13(6B):1376-88.
18. Susceptibility of mice deficient in the MHC class II transactivator to infection with Mycobacterium tuberculosis. Repique CJ, etal., Scand J Immunol. 2003 Jul;58(1):15-22.
19. Mouse MP Annotation Import Pipeline RGD automated import pipeline
20. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
22. In vivo class II transactivator expression in mice is induced by a non-interferon-gamma mechanism in response to local injury. Sims TN, etal., Transplantation. 1997 Dec 27;64(12):1657-64.
23. Polymorphisms in CLEC16A and CIITA at 16p13 are associated with primary adrenal insufficiency. Skinningsrud B, etal., J Clin Endocrinol Metab. 2008 Sep;93(9):3310-7. Epub 2008 Jul 1.
24. MHC2TA is associated with differential MHC molecule expression and susceptibility to rheumatoid arthritis, multiple sclerosis and myocardial infarction. Swanberg M, etal., Nat Genet 2005 May;37(5):486-94. Epub 2005 Apr 10.
25. Differential usage of class II transactivator promoters PI and PIV during inflammation and injury in kidney. Takeuchi O, etal., J Am Soc Nephrol. 2003 Nov;14(11):2823-32.
26. Mutation in the class II trans-activator leading to a mild immunodeficiency. Wiszniewski W, etal., J Immunol. 2001 Aug 1;167(3):1787-94.
27. Interrogating the complex role of chromosome 16p13.13 in multiple sclerosis susceptibility: independent genetic signals in the CIITA-CLEC16A-SOCS1 gene complex. Zuvich RL, etal., Hum Mol Genet. 2011 Sep 1;20(17):3517-24. Epub 2011 Jun 8.
Additional References at PubMed
PMID:8294875   PMID:8620527   PMID:8624807   PMID:8990384   PMID:8995190   PMID:9164958   PMID:9184229   PMID:9491996   PMID:9521055   PMID:9548512   PMID:9885917   PMID:10201997  
PMID:10204493   PMID:10349636   PMID:10438942   PMID:10452977   PMID:10637268   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11514597   PMID:11532347   PMID:11564890   PMID:11721060  
PMID:11937578   PMID:11970984   PMID:11978778   PMID:12102254   PMID:12218125   PMID:12471103   PMID:12477932   PMID:12506036   PMID:12525570   PMID:12538670   PMID:12748124   PMID:12923292  
PMID:14681479   PMID:14764672   PMID:14768052   PMID:15100295   PMID:15162420   PMID:15322541   PMID:15446308   PMID:15494498   PMID:15596523   PMID:15661876   PMID:15876426   PMID:15964851  
PMID:16081800   PMID:16141072   PMID:16141073   PMID:16210330   PMID:16226503   PMID:16226504   PMID:16236793   PMID:16254146   PMID:16280321   PMID:16547269   PMID:16569676   PMID:16602821  
PMID:16703565   PMID:16717113   PMID:16783635   PMID:16863914   PMID:16908858   PMID:16982097   PMID:17072917   PMID:17088432   PMID:17346795   PMID:17627890   PMID:17724129   PMID:17982082  
PMID:18245089   PMID:18287559   PMID:18292501   PMID:18337172   PMID:18359773   PMID:18768863   PMID:18799151   PMID:18923103   PMID:19041327   PMID:19224634   PMID:19234195   PMID:19481818  
PMID:19897249   PMID:20038602   PMID:20059953   PMID:20080304   PMID:20211142   PMID:20363966   PMID:20431619   PMID:20696698   PMID:20705943   PMID:21203976   PMID:21216962   PMID:21267068  
PMID:21321116   PMID:21358747   PMID:21426357   PMID:21464590   PMID:21478404   PMID:21481937   PMID:21499269   PMID:21547436   PMID:21576360   PMID:21739421   PMID:21873635   PMID:22084437  
PMID:22112519   PMID:22209772   PMID:22218223   PMID:22275866   PMID:22294690   PMID:22315415   PMID:22341446   PMID:22371391   PMID:22411629   PMID:22453923   PMID:22552229   PMID:22645137  
PMID:22711889   PMID:22851713   PMID:22908323   PMID:22973039   PMID:22974124   PMID:22988097   PMID:23087187   PMID:23144170   PMID:23175229   PMID:23264660   PMID:23300712   PMID:23382543  
PMID:23441229   PMID:23468840   PMID:23621273   PMID:23681904   PMID:23733190   PMID:23756162   PMID:23776173   PMID:23881368   PMID:23943651   PMID:24038328   PMID:24055710   PMID:24327761  
PMID:24452999   PMID:24466045   PMID:24478085   PMID:24489792   PMID:24634495   PMID:24842370   PMID:24901123   PMID:24987872   PMID:25101797   PMID:25198660   PMID:25223984   PMID:25347469  
PMID:25811463   PMID:25908663   PMID:26621778   PMID:26750312   PMID:26972221   PMID:27185856   PMID:27221978   PMID:27659424   PMID:27861821   PMID:28002729   PMID:28348230   PMID:28424681  
PMID:28608405   PMID:29238041   PMID:29975708   PMID:30165873   PMID:30327417   PMID:30584641   PMID:32325033   PMID:32855215   PMID:33361812   PMID:33401964   PMID:34183650   PMID:34303919  
PMID:34852236   PMID:35188458   PMID:35291899   PMID:36223747   PMID:37108368  


Genomics

Comparative Map Data
Ciita
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,297,877 - 10,348,928 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,297,923 - 10,346,282 (+)EnsemblGRCm39 Ensembl
GRCm381610,480,014 - 10,531,064 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,480,059 - 10,528,418 (+)EnsemblGRCm38mm10GRCm38
MGSCv371610,488,372 - 10,527,657 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361610,401,857 - 10,441,142 (+)NCBIMGSCv36mm8
Celera1611,120,578 - 11,160,248 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map165.65NCBI
CIITA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381610,866,206 - 10,943,021 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1610,866,222 - 10,943,021 (+)EnsemblGRCh38hg38GRCh38
GRCh371610,971,055 - 11,030,251 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361610,878,556 - 10,926,341 (+)NCBINCBI36Build 36hg18NCBI36
Build 341610,878,539 - 10,933,676NCBI
Celera1611,140,481 - 11,188,432 (+)NCBICelera
Cytogenetic Map16p13.13NCBI
HuRef1610,888,898 - 10,936,424 (+)NCBIHuRef
CHM1_11610,970,985 - 11,018,760 (+)NCBICHM1_1
T2T-CHM13v2.01610,902,173 - 10,978,992 (+)NCBIT2T-CHM13v2.0
Ciita
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2105,139,947 - 5,187,493 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl105,140,178 - 5,187,440 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx109,836,592 - 9,883,847 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0109,357,706 - 9,404,970 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,995,977 - 5,043,240 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0105,212,621 - 5,260,641 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl105,213,350 - 5,260,608 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0104,036,437 - 4,083,966 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4105,087,174 - 5,133,418 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1105,087,173 - 5,133,418 (-)NCBI
Celera104,158,435 - 4,205,434 (-)NCBICelera
Cytogenetic Map10q11NCBI
Ciita
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554427,603,893 - 7,647,624 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554427,600,903 - 7,647,619 (-)NCBIChiLan1.0ChiLan1.0
CIITA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan11615,201,913 - 15,267,425 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0169,819,440 - 9,885,379 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11611,041,434 - 11,090,485 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1611,041,434 - 11,090,485 (+)Ensemblpanpan1.1panPan2
CIITA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1631,774,486 - 31,837,025 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl631,774,609 - 31,836,820 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha633,156,962 - 33,219,510 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0631,956,967 - 32,019,399 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl631,956,967 - 31,996,000 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1631,770,183 - 31,832,926 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0631,644,456 - 31,706,901 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0632,068,973 - 32,131,721 (-)NCBIUU_Cfam_GSD_1.0
Ciita
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344111,196,647 - 111,229,034 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365309,033,510 - 9,073,341 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIITA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl332,172,214 - 32,230,780 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1332,171,706 - 32,230,775 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2333,109,119 - 33,117,697 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CIITA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1510,341,690 - 10,401,988 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl510,372,344 - 10,400,451 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606819,764,657 - 19,814,384 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ciita
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248248,116,537 - 8,153,482 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248248,099,877 - 8,156,661 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ciita
1575 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:717
Count of miRNA genes:421
Interacting mature miRNAs:505
Transcripts:ENSMUST00000023147
Prediction methods: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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141060Pbwg19_mpostnatal body weight growth 19 (mouse)Not determined16120780888Mouse
1300632Loca2_mlocomotor activity 2 (mouse)Not determined16122500574Mouse
10043879Adip25_madiposity 25 (mouse)Not determined16122520318Mouse
1301575Tanidd3_mtally ho associated non-insulin dependednt diabetes mellitus 3 (mouse)Not determined16122897739Mouse
4141468Nhdlq10_mnon-HDL QTL 10 (mouse)Not determined16124263853Mouse
1301970Heal11_mwound healing/regeneration 11 (mouse)Not determined16124263853Mouse
1301384Dice1_mdetermination of interleukin 4 commitment 1 (mouse)Not determined16128434358Mouse
10402497Lmr23_mleishmaniasis resistance 23 (mouse)Not determined16129674200Mouse
1301559Bbaa19_mB.burgdorferi-associated arthritis 19 (mouse)Not determined16130066977Mouse
10412289Ppsl_mplasma P-selectin levels (mouse)Not determined16130814572Mouse
27095908Scvln7_msacral vertebrae length 2, 5 week (mouse)16331786439820362Mouse
27226768Tibl9_mtibia length 9, 5 week (mouse)16331786451420363Mouse
27226785Feml12_mfemur length 12, 5 week (mouse)16331786464620363Mouse
1302106Rapop1_mradiation-induced apoptosis 1 (mouse)Not determined16378077915731053Mouse
26884432Zlq7_mzygomatic length QTL 7, 10 week (mouse)16381786464620363Mouse
38501069Tip4_mtuberculosis immunophenotype 4, IFN-g level (mouse)16431786444520363Mouse
1301443Mopkd2_mmodifier of polycystic kidney disease progression 2 (mouse)Not determined16464631438646414Mouse
1300656Bgeq15_mbody growth early QTL 15 (mouse)Not determined16577525239775440Mouse
1301945Skl7_mskeletal size (tail length) 7 (mouse)Not determined16577525239775440Mouse
1300943Skts9_mskin tumor susceptibility 9 (mouse)Not determined16577525239775440Mouse
1300987Skull23_mskull morphology 23 (mouse)Not determined16577525239775440Mouse
4141010Bbq1_mbrain and behavior QTL 1 (mouse)Not determined16647700935021216Mouse
1357763Lp1_mlymphocyte proliferation 1 (mouse)Not determined16654297965466552Mouse
4142460Nilac10_mnicotine induced locomotor activity 10 (mouse)Not determined16713690629225471Mouse
1357658Dice1a_mdetermination of interleukin 4 commitment 1a (mouse)Not determined16780110010957706Mouse
11251724Ewc6_methanol withdrawal and consumption 6 (mouse)16822605242226052Mouse
26884376Skwq4_mskull length QTL 4, 5 week (mouse)16841786490896888Mouse
10043978Obq35_mobesity QTL 35 (mouse)Not determined16988163143881631Mouse
13432183Rotse3_mrotarod training saline/ethanol 3 (mouse)16991777110617771Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001243760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001243761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001302618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001302619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_007575 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006521724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006521726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011245810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036159756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001781783 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC122352 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF000008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF042158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF042159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF100709 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF100710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI182240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK040723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK138822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK143956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK153609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK155184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK155311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK163054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC107330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC107331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BE850370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U46562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U60653 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSMUST00000023147   ⟹   ENSMUSP00000023147
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,306,143 - 10,346,282 (+)Ensembl
GRCm38.p6 Ensembl1610,488,279 - 10,528,418 (+)Ensembl
RefSeq Acc Id: ENSMUST00000229906
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,306,042 - 10,337,032 (+)Ensembl
GRCm38.p6 Ensembl1610,488,178 - 10,519,168 (+)Ensembl
RefSeq Acc Id: ENSMUST00000230146   ⟹   ENSMUSP00000154946
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,307,645 - 10,344,290 (+)Ensembl
GRCm38.p6 Ensembl1610,489,781 - 10,526,426 (+)Ensembl
RefSeq Acc Id: ENSMUST00000230392   ⟹   ENSMUSP00000155635
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,307,647 - 10,310,098 (+)Ensembl
GRCm38.p6 Ensembl1610,489,783 - 10,492,234 (+)Ensembl
RefSeq Acc Id: ENSMUST00000230395   ⟹   ENSMUSP00000155517
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,297,923 - 10,344,290 (+)Ensembl
GRCm38.p6 Ensembl1610,480,059 - 10,526,426 (+)Ensembl
RefSeq Acc Id: ENSMUST00000230450   ⟹   ENSMUSP00000155002
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,298,028 - 10,344,290 (+)Ensembl
GRCm38.p6 Ensembl1610,480,164 - 10,526,426 (+)Ensembl
RefSeq Acc Id: ENSMUST00000230533
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,298,015 - 10,330,721 (+)Ensembl
GRCm38.p6 Ensembl1610,480,151 - 10,512,857 (+)Ensembl
RefSeq Acc Id: ENSMUST00000230892   ⟹   ENSMUSP00000155232
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1610,307,610 - 10,321,757 (+)Ensembl
GRCm38.p6 Ensembl1610,489,746 - 10,503,893 (+)Ensembl
RefSeq Acc Id: NM_001243760   ⟹   NP_001230689
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,297,936 - 10,345,504 (+)NCBI
GRCm381610,480,072 - 10,527,640 (+)NCBI
Celera1611,113,679 - 11,160,324 (+)NCBI
cM Map16 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001243761   ⟹   NP_001230690
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,307,645 - 10,345,504 (+)NCBI
GRCm381610,489,781 - 10,527,640 (+)NCBI
Celera1611,113,679 - 11,160,324 (+)NCBI
cM Map16 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001302618   ⟹   NP_001289547
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,297,936 - 10,345,504 (+)NCBI
GRCm381610,480,072 - 10,527,640 (+)NCBI
Celera1611,113,679 - 11,160,324 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001302619   ⟹   NP_001289548
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,297,936 - 10,345,504 (+)NCBI
GRCm381610,480,072 - 10,527,640 (+)NCBI
Celera1611,113,679 - 11,160,324 (+)NCBI
Sequence:
RefSeq Acc Id: NM_007575   ⟹   NP_031601
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,306,042 - 10,345,504 (+)NCBI
GRCm381610,488,178 - 10,527,640 (+)NCBI
MGSCv371610,488,372 - 10,527,657 (+)RGD
Celera1611,113,679 - 11,160,324 (+)NCBI
cM Map16 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006521724   ⟹   XP_006521787
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,297,877 - 10,338,825 (+)NCBI
GRCm381610,480,014 - 10,520,961 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006521726   ⟹   XP_006521789
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,297,878 - 10,336,429 (+)NCBI
GRCm381610,480,014 - 10,518,565 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011245810   ⟹   XP_011244112
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,307,558 - 10,348,928 (+)NCBI
GRCm381610,489,695 - 10,531,064 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036159756   ⟹   XP_036015649
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,311,483 - 10,348,928 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001781783
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391610,297,879 - 10,336,239 (+)NCBI
GRCm381610,480,015 - 10,531,064 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001230689 (Get FASTA)   NCBI Sequence Viewer  
  NP_001230690 (Get FASTA)   NCBI Sequence Viewer  
  NP_001289547 (Get FASTA)   NCBI Sequence Viewer  
  NP_001289548 (Get FASTA)   NCBI Sequence Viewer  
  NP_031601 (Get FASTA)   NCBI Sequence Viewer  
  XP_006521787 (Get FASTA)   NCBI Sequence Viewer  
  XP_006521789 (Get FASTA)   NCBI Sequence Viewer  
  XP_011244112 (Get FASTA)   NCBI Sequence Viewer  
  XP_036015649 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB05004 (Get FASTA)   NCBI Sequence Viewer  
  AAB48859 (Get FASTA)   NCBI Sequence Viewer  
  AAB92364 (Get FASTA)   NCBI Sequence Viewer  
  AAB92365 (Get FASTA)   NCBI Sequence Viewer  
  AAC34366 (Get FASTA)   NCBI Sequence Viewer  
  AAC34367 (Get FASTA)   NCBI Sequence Viewer  
  AAF06838 (Get FASTA)   NCBI Sequence Viewer  
  AAF06839 (Get FASTA)   NCBI Sequence Viewer  
  AAI07331 (Get FASTA)   NCBI Sequence Viewer  
  AAI07332 (Get FASTA)   NCBI Sequence Viewer  
  BAC30683 (Get FASTA)   NCBI Sequence Viewer  
  BAE23789 (Get FASTA)   NCBI Sequence Viewer  
  BAE25629 (Get FASTA)   NCBI Sequence Viewer  
  BAE32115 (Get FASTA)   NCBI Sequence Viewer  
  BAE33100 (Get FASTA)   NCBI Sequence Viewer  
  BAE33182 (Get FASTA)   NCBI Sequence Viewer  
  BAE37173 (Get FASTA)   NCBI Sequence Viewer  
  EDK97316 (Get FASTA)   NCBI Sequence Viewer  
  EDK97317 (Get FASTA)   NCBI Sequence Viewer  
  EDK97318 (Get FASTA)   NCBI Sequence Viewer  
  EDK97319 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000023147
  ENSMUSP00000023147.7
  ENSMUSP00000154946
  ENSMUSP00000154946.2
  ENSMUSP00000155002
  ENSMUSP00000155002.2
  ENSMUSP00000155232.2
  ENSMUSP00000155517
  ENSMUSP00000155517.2
  ENSMUSP00000155635.2
GenBank Protein P79621 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_031601   ⟸   NM_007575
- Peptide Label: isoform 2
- UniProtKB: Q3U5G4 (UniProtKB/TrEMBL),   Q3U2P0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001230689   ⟸   NM_001243760
- Peptide Label: isoform 1
- UniProtKB: Q3UNW8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001230690   ⟸   NM_001243761
- Peptide Label: isoform 3
- UniProtKB: A0A2R8VHC7 (UniProtKB/TrEMBL),   Q3UU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006521787   ⟸   XM_006521724
- Peptide Label: isoform X1
- UniProtKB: Q3UNW8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006521789   ⟸   XM_006521726
- Peptide Label: isoform X3
- UniProtKB: Q8HW99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001289548   ⟸   NM_001302619
- Peptide Label: isoform 5
- UniProtKB: Q3UU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001289547   ⟸   NM_001302618
- Peptide Label: isoform 4
- UniProtKB: Q31115 (UniProtKB/Swiss-Prot),   O78109 (UniProtKB/Swiss-Prot),   O78036 (UniProtKB/Swiss-Prot),   O46787 (UniProtKB/Swiss-Prot),   Q9TPP1 (UniProtKB/Swiss-Prot),   P79621 (UniProtKB/Swiss-Prot),   Q3UNW8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011244112   ⟸   XM_011245810
- Peptide Label: isoform X2
- UniProtKB: Q3UU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000155232   ⟸   ENSMUST00000230892
RefSeq Acc Id: ENSMUSP00000155002   ⟸   ENSMUST00000230450
RefSeq Acc Id: ENSMUSP00000155517   ⟸   ENSMUST00000230395
RefSeq Acc Id: ENSMUSP00000155635   ⟸   ENSMUST00000230392
RefSeq Acc Id: ENSMUSP00000154946   ⟸   ENSMUST00000230146
RefSeq Acc Id: ENSMUSP00000023147   ⟸   ENSMUST00000023147
RefSeq Acc Id: XP_036015649   ⟸   XM_036159756
- Peptide Label: isoform X2
- UniProtKB: Q3UU40 (UniProtKB/TrEMBL)
Protein Domains
NACHT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P79621-F1-model_v2 AlphaFold P79621 1-1155 view protein structure

Promoters
RGD ID:8685420
Promoter ID:EPDNEW_M20740
Type:initiation region
Name:Ciita_1
Description:Mus musculus class II transactivator , transcript variant 3,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381610,480,072 - 10,480,132EPDNEW
RGD ID:6826911
Promoter ID:MM_KWN:20081
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Spleen
Transcripts:ENSMUST00000100187,   NM_007575
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361610,488,276 - 10,488,777 (+)MPROMDB
RGD ID:6826787
Promoter ID:MM_KWN:20082
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lung
Transcripts:ENSMUST00000100186,   UC007YDV.1,   UC007YDW.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361610,489,496 - 10,489,996 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:108445 AgrOrtholog
Ensembl Genes ENSMUSG00000022504 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000023147 ENTREZGENE
  ENSMUST00000023147.8 UniProtKB/Swiss-Prot
  ENSMUST00000230146 ENTREZGENE
  ENSMUST00000230146.2 UniProtKB/TrEMBL
  ENSMUST00000230392.2 UniProtKB/TrEMBL
  ENSMUST00000230395 ENTREZGENE
  ENSMUST00000230395.2 UniProtKB/Swiss-Prot
  ENSMUST00000230450 ENTREZGENE
  ENSMUST00000230450.2 UniProtKB/Swiss-Prot
  ENSMUST00000230892.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MHC_II_transact UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NACHT_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:108445 ENTREZGENE
NCBI Gene 12265 ENTREZGENE
PANTHER MHC CLASS II TRANSACTIVATOR UniProtKB/Swiss-Prot
  MHC CLASS II TRANSACTIVATOR UniProtKB/Swiss-Prot
  MHC CLASS II TRANSACTIVATOR UniProtKB/TrEMBL
  MHC CLASS II TRANSACTIVATOR UniProtKB/TrEMBL
Pfam LRR_6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NACHT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ciita PhenoGen
PRINTS MHCIIACTVATR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NACHT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LRR_RI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP RNI-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A2R8VHC7 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R8VHL9_MOUSE UniProtKB/TrEMBL
  A0A2R8W6Z7_MOUSE UniProtKB/TrEMBL
  C2TA_MOUSE UniProtKB/Swiss-Prot
  O46787 ENTREZGENE
  O78036 ENTREZGENE
  O78109 ENTREZGENE
  P79621 ENTREZGENE
  Q31115 ENTREZGENE
  Q3KND9_MOUSE UniProtKB/TrEMBL
  Q3KNE0_MOUSE UniProtKB/TrEMBL
  Q3TR57_MOUSE UniProtKB/TrEMBL
  Q3U2F8_MOUSE UniProtKB/TrEMBL
  Q3U2P0 ENTREZGENE, UniProtKB/TrEMBL
  Q3U5G4 ENTREZGENE, UniProtKB/TrEMBL
  Q3UNW8 ENTREZGENE, UniProtKB/TrEMBL
  Q3UU40 ENTREZGENE, UniProtKB/TrEMBL
  Q8HW99 ENTREZGENE, UniProtKB/TrEMBL
  Q9TPP1 ENTREZGENE
UniProt Secondary O46787 UniProtKB/Swiss-Prot
  O78036 UniProtKB/Swiss-Prot
  O78109 UniProtKB/Swiss-Prot
  Q31115 UniProtKB/Swiss-Prot
  Q9TPP1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-05 Ciita  class II transactivator  Gm9475  predicted gene 9475  Data merged from RGD:1625974 737654 PROVISIONAL