Pia21 QTL Report (Rattus norvegicus) - Rat Genome Database

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QTL Registration

QTL: Pia21 (Pristane induced arthritis QTL 21) Rattus norvegicus

Symbol: Pia21
Name: Pristane induced arthritis QTL 21
RGD ID: 737973
Previously known as: Pia1
Trait: joint integrity trait   (VT:0010548)    
Measurement Type: joint inflammation composite score   (CMO:0000919)    
LOD Score: 4.8
P Value: Not Available
Variance: Not Available
Inheritance Type: dominant
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,621,656 - 4,606,812RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0204,039,317 - 4,855,475RGD_MAPPER_PIPELINERnor6.0
Rnor_5.0206,118,863 - 6,935,875RGDRnor5.0
RGSC_v3.4203,660,646 - 4,740,814RGDRGSC3.4
RGSC_v3.1203,660,872 - 4,741,041RGD
Cross Type: Not Available
Strains Crossed: DA.E3-(D20Wox3-D20Mgh4)/Rhd 
JBrowse: View Region in Genome Browser (JBrowse)
Model



Disease Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Experimental Condition
pristane  (IDA)

Measurement Method

Vertebrate Trait

Rat Strain

References

References - curated
# Reference Title Reference Citation
1. Evidence for common autoimmune disease genes controlling onset, severity, and chronicity based on experimental models for multiple sclerosis and rheumatoid arthritis. Bergsteinsdottir K, etal., J Immunol 2000 Feb 1;164(3):1564-8
2. Quest for arthritis-causative genetic factors in the rat. Joe B Physiol Genomics. 2006 Oct 3;27(1):1-11. Epub 2006 Jun 27.
3. Identification and isolation of dominant susceptibility loci for pristane-induced arthritis. Olofsson P, etal., J Immunol 2003 Jul 1;171(1):407-16.
4. The complexity in hunting for candidate genes within QTL that determine susceptibility to arthritis in rats. Xiong Q, etal., Crit Rev Immunol. 2008;28(2):127-57.
5. Genetic and molecular basis of quantitative trait loci of arthritis in rat: genes and polymorphisms. Xiong Q, etal., J Immunol. 2008 Jul 15;181(2):859-64.
Related QTLs

Related QTL Description Reference
Pia1 maps to same region RGD:61031


Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
3876Tnftumor necrosis factor2036220113624629Rat
1303162Ltblymphotoxin beta2036275363629381Rat
620077Lst1leukocyte specific transcript 12036346803639731Rat
727881Ncr3natural cytotoxicity triggering receptor 32036372423643748Rat
61924Aif1allograft inflammatory factor 12036467843652670Rat
1303199E230034O05RikE230034O05Rik gene2036563063658463Rat
1303025Prrc2aproline-rich coiled-coil 2A2036583913674143Rat
41318103Snora38small nucleolar RNA, H/ACA box 382036609003661033Rat
71064Bag6BAG cochaperone 62036759383690414Rat
620773Apomapolipoprotein M2036909503693550Rat
1303038G4G4 protein2036936913696194Rat
1303304Gpank1G patch domain and ankyrin repeats 12036976413700814Rat
619978Csnk2bcasein kinase 2 beta2037003633705331Rat
1303101Ly6g5blymphocyte antigen 6 family member G5B2037054643707830Rat
735180Ly6g5clymphocyte antigen 6 family member G5C2037094263713940Rat
1303164Abhd16aabhydrolase domain containing 16A, phospholipase2037190893733952Rat
1594424Rps25-ps2ribosomal protein S25, pseudogene 22037353463735800Rat
1303333Ly6g6flymphocyte antigen 6 family member G6F2037373953742708Rat
1303112Ly6g6elymphocyte antigen 6 family member G6E2037449993749867Rat
1303064Ly6g6dlymphocyte antigen 6 family member G6D2037495983752181Rat
1302999Ly6g6clymphocyte antigen 6 family member G6C2037536323757205Rat
1303269Mpig6bmegakaryocyte and platelet inhibitory receptor G6b2037573963761024Rat
1302955Ddah2dimethylarginine dimethylaminohydrolase 22037614603764718Rat
1303043Clic1chloride intracellular channel 12037648673773711Rat
1303008Msh5mutS homolog 52037738673793337Rat
41396061LOC120099048U6 spliceosomal RNA2037745723774677Rat
1359359Sapcd1suppressor APC domain containing 12037939803795767Rat
1303137Vwa7von Willebrand factor A domain containing 72037949913805646Rat
3950Vars1valyl-tRNA synthetase 12038057743820468Rat
11436027LOC108349032uncharacterized LOC1083490322038206733830868Rat
1590214Rpl13-ps1ribosomal protein L13, pseudogene 12038394603839702Rat
1598536Lsm2LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated2038434673847217Rat
1595925Hspa1lheat shock protein family A (Hsp70) member 1 like2038488433855571Rat
2840Hspa1aheat shock protein family A (Hsp70) member 1A2038551043859148Rat
1593284Hspa1bheat shock protein family A (Hsp70) member 1B2038707653873221Rat
7707260LOC102549726uncharacterized LOC1025497262038765633879281Rat
41104675Snord48small nucleolar RNA, C/D box 482038772833877346Rat
41062511Snord52small nucleolar RNA, C/D box 522038784123878477Rat
3163Neu1neuraminidase 12038974803901745Rat
41072487LOC120098979uncharacterized LOC1200989792039009763906605Rat
1303167Slc44a4solute carrier family 44, member 42039030993919215Rat
1302972Ehmt2euchromatic histone lysine methyltransferase 22039196233936751Rat
1302958Zbtb12zinc finger and BTB domain containing 122039376683940514Rat
7661101LOC102553878uncharacterized LOC1025538782039398263944890Rat
2231C2complement C22039514743970376Rat
2204Cfbcomplement factor B2039706433976510Rat
1303325Nelfenegative elongation factor complex member E2039765123982389Rat
1303059Skic2SKI2 subunit of superkiller complex2039824943993261Rat
1303267Dxodecapping exoribonuclease2039933223995484Rat
1359601Stk19serine/threonine kinase 192039955904005117Rat
620005C4acomplement C4A2040057314020083Rat
2461Cyp21a1cytochrome P450, family 21, subfamily a, polypeptide 12040202174026923Rat
3887Tnxa-ps1tenascin XA, pseudogene 12040264714027826Rat
40991350LOC120098978uncharacterized LOC1200989782040846124087472Rat
1303317Atf6bactivating transcription factor 6 beta2040909214098920Rat
1303227FkbplFKBP prolyl isomerase like2040998454101315Rat
620375Ppt2palmitoyl-protein thioesterase 22041125204132774Rat
1359348Prrt1proline-rich transmembrane protein 12041179574121643Rat
1549706Egfl8EGF-like-domain, multiple 82041329304136024Rat
1303287Agpat11-acylglycerol-3-phosphate O-acyltransferase 12041359554144880Rat
1588458Rnf5ring finger protein 52041455394147985Rat
69258Ageradvanced glycosylation end product-specific receptor2041481504151361Rat
1303084Pbx2PBX homeobox 22041515004156425Rat
1303014Gpsm3G-protein signaling modulator 32041571234158984Rat
1303282Notch4notch receptor 42041603624184466Rat
1588459Stk19-psserine/threonine kinase 19 pseudogene2041941714196677Rat
1591983C4bcomplement C4B (Chido blood group)2041973714211684Rat
1303332Cyp21a1-pscytochrome P450, family 21, subfamily a, polypeptide 1, pseudogene2042156374231737Rat
1624210Btnl4butyrophilin-like 42042313504244825Rat
1303010Btnl8butyrophilin-like 82042667944280876Rat
1303124Btnl7butyrophilin-like 72043010784313522Rat
1588460Btnl6-ps1butyrophilin-like 6, pseudogene 12043369024344877Rat
1598537Btnl5butyrophilin-like 52043667804376385Rat
1598538Btn3a2butyrophilin, subfamily 3, member A22043982544405681Rat
1597063Tsbp1testis expressed basic protein 12044100024467284Rat
1303262Btnl3butyrophilin-like 32044740564489024Rat
11477629LOC108349035uncharacterized LOC1083490352044758274479937Rat
620731Btnl2butyrophilin-like 22044909044502557Rat
1593283RT1-DaRT1 class II, locus Da2045134644518457Rat
1595922RT1-Db2RT1 class II, locus Db22045207234539724Rat
1303212Arrb2-psarrestin, beta 2, pseudogene2045238954524872Rat
1593282RT1-Db1RT1 class II, locus Db12045486644558237Rat
1595867RT1-BaRT1 class II, locus Ba2045751344579727Rat
3469RT1-BbRT1 class II, locus Bb2045965584602201Rat
7536082LOC102554184uncharacterized LOC1025541842046044444607609Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
34749D20UW11522036216493621791Ratregion
34749D20UW11522036216493621791Ratregion
11428D20Wox31152036216563621771Ratregion
11428D20Wox31152036216563621771Ratregion
37594D20Rat411952046066074606812Ratregion
38826D20Rat421412044596984459841Ratregion
45669D20Got41742037758303776003Ratregion
66471D20Uia11402044487204448860Ratregion
1576378D20Ztm11742036215993621773Ratregion
1576378D20Ztm11742036215993621773Ratregion
1630310D20Got1021622041463734146535Ratregion
1626764D20Rhw91812046044034604582Ratregion
1626778D20Rhw101662046066464606812Ratregion
1639768D20Wox122032038688473869052Ratregion
2303197D20Yum621502041275334127683Ratregion
2303199D20Yum581702039985813998751Ratregion
2303203D20Yum512212037340773734302Ratregion
2303205D20Yum711522044233414423493Ratregion
2303207D20Yum571792039658813966060Ratregion
2303211D20Yum611662040994114099577Ratregion
2303215D20Yum651062042423524242458Ratregion
2303219D20Yum551612038975213897682Ratregion
2303223D20Yum671792042743464274525Ratregion
2303223D20Yum671792042770004277180Ratregion
2303225D20Yum631572041714334171590Ratregion
2303233D20Yum501552037025943702749Ratregion
2303239D20Yum591742040310684031242Ratregion
2303249D20Yum641542042014954201649Ratregion
2303253D20Yum602040571584057419Ratregion
2303253D20Yum602040572774057419Ratregion
2303269D20Yum741622045763954576557Ratregion
2303273D20Yum702272044095874409812Ratregion
2303275D20Yum491852036473353647520Ratregion
2303287D20Yum481922036268273627019Ratregion
2303287D20Yum481922036268273627019Ratregion
2303289D20Yum522232037500983750321Ratregion
2303299D20Yum531972038366033836800Ratregion
2303305D20Yum691892043432284343417Ratregion
2303307D20Yum731142045224654522579Ratregion
2303307D20Yum731142045224654522797Ratregion
2303309D20Yum721692044931384493307Ratregion
5036189D17Dgm21952046004294600624Ratregion
5031244PMC112151P14702036230593623529Ratregion
5031244PMC112151P14702036230593623529Ratregion
5031256PMC116546P11712036235303623701Ratregion
5031256PMC116546P11712036235303623701Ratregion
5025988RH1304731512045183044518455Ratregion
5028591AI3260742072037195393719746Ratregion
5034450AA9003791862036763863676977Ratregion
5034480BG3725722062037926423793155Ratregion
5034660BF3908041852041366264136811Ratregion
5026672RH1330972142045959994596213Ratregion
5032479D17Ertd710e2252039196383919863Ratregion
5027519AI255840982039763003976398Ratregion
5025356RH1279991942038435753843769Ratregion
5033427RH1387921462040999164100062Ratregion
5033455RH1388961202037275253727645Ratregion
5051911RH947291752036241973624375Ratregion
5051911RH947291752036241973624375Ratregion
5052061RH948173302036226943623024Ratregion
5052061RH948173302036226943623024Ratregion
5051276RH1345401812038057873806488Ratregion
5051913RH947301452036216583621793Ratregion
5051913RH947301452036216583621793Ratregion
5058600BI2843062062041363854136591Ratregion
5053205RH1425141002037813183781418Ratregion
5049826RH1337042142037191303719391Ratregion
5049906RH1337501912041477934147984Ratregion
5051715RH94616902040265094026599Ratregion
5041592RH1289461852038728853873070Ratregion
5041826RH1290811632037955793795742Ratregion
5044844RH1308362072039758063976336Ratregion
5048724RH1330692012041571914157392Ratregion
5046166RH1315962182038586363858854Ratregion
5046662RH1318821502041180034118153Ratregion
5047106RH1321371972036977273697924Ratregion
5048384RH1328721962036384753638774Ratregion
5049522RH1335291532045966024596755Ratregion
5040094RH1280852132037615043761717Ratregion
5039362RH1276622102036276373627847Ratregion
5039362RH1276622102036276373627847Ratregion
5040506RH1283231922039930113993203Ratregion
5043344RH1299721902037051103705300Ratregion
7192235D20Wox122042038688463869052Ratregion
5072778RH1370481862037051153705301Ratregion
5071940RH1353732052036519103652637Ratregion
5075544RH1386551712036243603624532Ratregion
5075544RH1386551712036243603624532Ratregion
5076798RH1393842042041357964136000Ratregion
5077722RH1399202152037608083761023Ratregion
5076288RH1390891892041613384161713Ratregion
5078186RH1401931942038976813897875Ratregion
5070974RH1348141842040265584026742Ratregion
5078672RH1404821322041323614132493Ratregion
5071400RH1350601922037451353745327Ratregion
5071660RH1352112142041361834136397Ratregion
5070201RH945301872038729183873105Ratregion
5060676BE0988921722036889303689103Ratregion
5065438BE1154942122040909764091188Ratregion
5066056BF4132352012040766934076894Ratregion
5062936BE1134821512041807094180860Ratregion
5066352PMC162222P19282041494854150413Ratregion
5064956BF4053322002041246334125169Ratregion
5082653BE1199391692041474994147668Ratregion
5087560PMC314357P14892038567183857207Ratregion
5087560PMC314357P14892038713103871800Ratregion
5087518PMC26794P36722036230583623730Ratregion
5087518PMC26794P36722036230583623730Ratregion
5084460AI1768041012041517444151845Ratregion
5084572AI0139412282040870984087326Ratregion
5081384AI4539612092041482174148512Ratregion
5081234RH1420432062036937483693954Ratregion
5507585Aif102036510593651818Ratregion
5503560UniSTS:46395902036228633623794Ratregion
5503560UniSTS:46395902036228633623794Ratregion
5503648UniSTS:4654675612041616764162237Ratregion
5506169UniSTS:4985067482037451873745935Ratregion
5506231Clic11552037650253765180Ratregion
5499635MARC_5887-5888:991939775:17322041545724155304Ratregion
5499619MARC_3347-3348:991937077:11952037040623705128Ratregion
5500469RH12686602036798163680353Ratregion
5503264UniSTS:2376302142040999204100134Ratregion
5501516RH358712462036778353678288Ratregion
5501760MARC_11957-11958:1003854518:15572036629913663548Ratregion
5502146MARC_5857-5858:997299374:102036512403651828Ratregion
5502124MARC_5045-5046:996690083:15632036726193673182Ratregion
5502132MARC_5411-5412:996690356:11742036763813676960Ratregion
5502299RH1243321632041324554132618Ratregion
Position Markers

Flank 1: (D20Wox3)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,621,656 - 3,621,771 (+)MAPPER
mRatBN7.2203,621,656 - 3,621,771 (-)MAPPER
Rnor_6.0205,192,240 - 5,192,354NCBI
Rnor_6.0204,855,475 - 4,855,589NCBI
Rnor_5.0206,935,875 - 6,935,989UniSTS
RGSC_v3.4203,660,646 - 3,660,760UniSTS
RGSC_v3.1203,660,872 - 3,660,987RGD
Celera204,403,718 - 4,403,832UniSTS
Cytogenetic Map20p12UniSTS
Flank 2: (D20Rat41)
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,606,607 - 4,606,812 (-)MAPPER
Rnor_6.0204,039,113 - 4,039,317NCBI
Rnor_5.0206,118,659 - 6,118,863UniSTS
RGSC_v3.4204,740,609 - 4,740,814RGD
RGSC_v3.4204,740,610 - 4,740,814UniSTS
RGSC_v3.1204,740,837 - 4,741,041RGD
Celera206,207,604 - 6,207,808UniSTS
RH 3.4 Map2067.2UniSTS
RH 3.4 Map2067.2RGD
RH 2.0 Map2074.2RGD
SHRSP x BN Map200.0RGD
FHH x ACI Map200.0RGD


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013624629Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
737973Pia21Pristane induced arthritis QTL 214.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2036216564606812Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
7175099Tcs2T cell selection QTL 2T cell selectionexpression2045025574693102Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat


Additional Information

Database Acc Id Source(s)
NCBI Gene Pia21

RGD Curation Notes
Note Type Note Reference
qtl_disease region includes the MHC which is associated with the chronic arthritis and its regulation 631850
qtl_disease locus causes delay in arthritis onset and affects early severity 631850
qtl_gene whole genome analysis using PGMapper revealed Tnf, Mif, Tap2, Tap1, Hla-dma and Hla-dmb as RA associated genes and Tnf, Mif, Tap2, Tap1, Hla-dma and Hla-dmb as RA associated polymorphism either in coding or regulatory region 2300074
qtl_gene 62 known and 7 novel genes were found in an analysis based on PubMed and OMIM data 2307198
qtl_general previously identified by intercross breeding of the DA and E3 strains 61088
qtl_general previously identified by intercross breeding of the DA and E3 strains 61089