Dag1 (dystroglycan 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Dag1 (dystroglycan 1) Rattus norvegicus
Analyze
Symbol: Dag1
Name: dystroglycan 1
RGD ID: 621890
Description: Enables laminin-1 binding activity. Involved in several processes, including calcium-dependent cell-matrix adhesion; cellular response to cholesterol; and nervous system development. Located in several cellular components, including basolateral plasma membrane; costamere; and focal adhesion. Part of dystrophin-associated glycoprotein complex. Used to study myocardial infarction. Biomarker of muscular atrophy; primary biliary cholangitis; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Duchenne muscular dystrophy; autosomal recessive limb-girdle muscular dystrophy type 2D; autosomal recessive limb-girdle muscular dystrophy type 2P; congenital muscular dystrophy-dystroglycanopathy type A9; and inclusion body myositis. Orthologous to human DAG1 (dystroglycan 1); PARTICIPATES IN arrhythmogenic right ventricular cardiomyopathy pathway; cell-extracellular matrix signaling pathway; dilated cardiomyopathy pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: alpha-dystroglycan; beta-dystroglycan; dystroglycan; dystroglycan 1 (dystrophin-associated glycoprotein 1)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28108,890,926 - 108,955,611 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8108,890,929 - 108,952,325 (-)Ensembl
Rnor_6.08116,980,501 - 116,993,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,980,497 - 116,993,193 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08116,334,176 - 116,346,857 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48113,470,871 - 113,483,433 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18113,492,696 - 113,493,023 (-)NCBI
Celera8108,195,279 - 108,207,962 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
angiogenesis involved in wound healing  (IEP)
axon guidance  (IBA)
axon regeneration  (IEP)
basement membrane organization  (ISO)
branching involved in salivary gland morphogenesis  (ISO)
calcium-dependent cell-matrix adhesion  (IMP)
cellular response to cholesterol  (IEP)
cellular response to mechanical stimulus  (IMP)
commissural neuron axon guidance  (ISO)
epithelial tube branching involved in lung morphogenesis  (ISO)
membrane protein ectodomain proteolysis  (ISO)
microtubule anchoring  (ISO)
modulation by virus of host process  (ISO)
morphogenesis of an epithelial sheet  (ISO)
morphogenesis of an epithelium  (IBA)
muscle attachment  (IBA)
myelination in peripheral nervous system  (ISO)
negative regulation of cell migration  (ISO)
negative regulation of MAPK cascade  (ISO)
negative regulation of protein kinase B signaling  (ISO)
nerve development  (IBA,IEP)
nerve maturation  (ISO)
positive regulation of basement membrane assembly involved in embryonic body morphogenesis  (ISO)
positive regulation of cell-matrix adhesion  (IMP)
positive regulation of myelination  (IMP)
positive regulation of oligodendrocyte differentiation  (IMP)
positive regulation of protein kinase activity  (IMP)
regulation of epithelial to mesenchymal transition  (ISO)
regulation of gastrulation  (ISO)
regulation of neurotransmitter receptor localization to postsynaptic specialization membrane  (ISO)
regulation of synapse organization  (ISO)
response to denervation involved in regulation of muscle adaptation  (IEP)
response to peptide hormone  (IEP)
retrograde trans-synaptic signaling by trans-synaptic protein complex  (ISO)
Schwann cell development  (ISO)
Schwann cell differentiation  (IEP)
skeletal muscle tissue regeneration  (IEP)
viral entry into host cell  (IEA)

Molecular Function

References

References - curated
1. Aragón J, etal., J Neurochem. 2011 Nov;119(4):697-707. doi: 10.1111/j.1471-4159.2011.07347.x. Epub 2011 Sep 22.
2. Bedossa P, etal., Lab Invest. 2002 Aug;82(8):1053-61.
3. Belkin AM and Smalheiser NR, Cell Adhes Commun. 1996 Nov;4(4-5):281-96.
4. Biral D, etal., J Muscle Res Cell Motil. 1996 Oct;17(5):523-32.
5. Budinger GR, etal., Am J Respir Cell Mol Biol. 2008 Dec;39(6):666-72. doi: 10.1165/rcmb.2007-0432OC. Epub 2008 Jun 12.
6. Chockalingam PS, etal., Am J Physiol Cell Physiol 2002 Aug;283(2):C500-11.
7. Collins BJ, etal., Endocrinology 2001 Jul;142(7):3152-62.
8. Colognato H, etal., Development. 2007 May;134(9):1723-36. Epub 2007 Mar 29.
9. Concolino P, etal., Clin Chim Acta. 2007 Mar;378(1-2):164-7. Epub 2006 Nov 25.
10. Fortunato MJ, etal., PLoS One. 2014 May 13;9(5):e97567. doi: 10.1371/journal.pone.0097567. eCollection 2014.
11. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
12. Grewal PK, etal., Nat Genet 2001 Jun;28(2):151-4.
13. Hayashi YK, etal., Neurology. 2001 Jul 10;57(1):115-21.
14. Hoshino S, etal., Acta Histochem. 2002;104(2):139-47.
15. Huizing M, etal., Mol Genet Metab. 2004 Mar;81(3):196-202.
16. Jimi T, etal., Muscle Nerve. 1995 Aug;18(8):910-3.
17. Leone L, etal., J Neuropathol Exp Neurol. 2005 Nov;64(11):1007-17.
18. Marquez FG, etal., Neuroscience. 2003;118(4):957-66.
19. Masaki T, etal., Exp Neurol. 2002 Mar;174(1):109-17.
20. Masaki T, etal., Med Electron Microsc. 2003 Dec;36(4):221-39.
21. Matsumura K, etal., J Biol Chem. 1997 May 23;272(21):13904-10.
22. Matsumura K, etal., Neuromuscul Disord. 2005 May;15(5):336-41.
23. MGD data from the GO Consortium
24. Miyagawa S, etal., Circulation. 2002 May 28;105(21):2556-61.
25. Mulvey C, etal., Eur J Cell Biol. 2005 Nov;84(11):867-83.
26. NCBI rat LocusLink and RefSeq merged data July 26, 2002
27. OMIM Disease Annotation Pipeline
28. Pipeline to import KEGG annotations from KEGG into RGD
29. Qiu GP, etal., Neurosci Lett. 2015 Feb 19;588:42-8. doi: 10.1016/j.neulet.2014.12.053. Epub 2014 Dec 27.
30. Rambukkana A, etal., Science. 1998 Dec 11;282(5396):2076-9.
31. RGD automated data pipeline
32. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
33. RGD automated import pipeline for gene-chemical interactions
34. Rice KM, etal., J Gerontol A Biol Sci Med Sci. 2006 Nov;61(11):1119-29.
35. Satz JS, etal., J Neurosci. 2008 Oct 15;28(42):10567-75. doi: 10.1523/JNEUROSCI.2457-08.2008.
36. Tian M, etal., Eur J Neurosci. 1996 Dec;8(12):2739-47.
37. Ueda H, etal., J Histochem Cytochem. 1998 Feb;46(2):185-91. doi: 10.1177/002215549804600207.
38. Ursitti JA, etal., J Biol Chem. 2004 Oct 1;279(40):41830-8. Epub 2004 Jul 6.
39. Vega-Moreno J, etal., Cell Physiol Biochem. 2012;29(5-6):905-18. doi: 10.1159/000186933. Epub 2012 May 11.
40. Wappler EA, etal., Microvasc Res. 2011 Mar;81(2):153-9. doi: 10.1016/j.mvr.2010.12.005. Epub 2010 Dec 28.
41. Williams MW and Bloch RJ, J Muscle Res Cell Motil. 1999 May;20(4):383-93.
42. Zhan Y, etal., J Biol Chem. 2005 May 6;280(18):18015-24. Epub 2005 Feb 22.
Additional References at PubMed
PMID:8017170   PMID:9524190   PMID:10481911   PMID:10988290   PMID:11115849   PMID:11259414   PMID:11423118   PMID:11430802   PMID:11502221   PMID:11717465   PMID:11724572   PMID:11798066  
PMID:12797959   PMID:14622018   PMID:14627610   PMID:15210115   PMID:15284294   PMID:15578661   PMID:16254364   PMID:16502470   PMID:16935300   PMID:17628813   PMID:17993586   PMID:18188865  
PMID:18201566   PMID:18341635   PMID:18691338   PMID:18764929   PMID:19199708   PMID:19348877   PMID:19451651   PMID:19587235   PMID:19694806   PMID:19931597   PMID:19946898   PMID:20512930  
PMID:20857503   PMID:21423176   PMID:22117643   PMID:23217742   PMID:23376485   PMID:23533145   PMID:23793062   PMID:23940118   PMID:24006456   PMID:25157101   PMID:26583111   PMID:27068509  
PMID:27559042   PMID:27707967  


Genomics

Comparative Map Data
Dag1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28108,890,926 - 108,955,611 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl8108,890,929 - 108,952,325 (-)Ensembl
Rnor_6.08116,980,501 - 116,993,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,980,497 - 116,993,193 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08116,334,176 - 116,346,857 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48113,470,871 - 113,483,433 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18113,492,696 - 113,493,023 (-)NCBI
Celera8108,195,279 - 108,207,962 (-)NCBICelera
Cytogenetic Map8q32NCBI
DAG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl349,468,703 - 49,535,618 (+)EnsemblGRCh38hg38GRCh38
GRCh38349,468,703 - 49,535,618 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37349,506,136 - 49,573,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36349,482,569 - 49,548,052 (+)NCBINCBI36hg18NCBI36
Build 34349,482,594 - 49,548,048NCBI
Celera349,470,589 - 49,537,675 (+)NCBI
Cytogenetic Map3p21.31NCBI
HuRef349,565,602 - 49,632,289 (+)NCBIHuRef
CHM1_1349,458,558 - 49,525,426 (+)NCBICHM1_1
Dag1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399108,082,060 - 108,141,176 (-)NCBIGRCm39mm39
GRCm39 Ensembl9108,081,833 - 108,141,157 (-)Ensembl
GRCm389108,204,861 - 108,263,977 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9108,204,634 - 108,263,958 (-)EnsemblGRCm38mm10GRCm38
MGSCv379108,108,289 - 108,166,067 (-)NCBIGRCm37mm9NCBIm37
MGSCv369108,064,059 - 108,121,837 (-)NCBImm8
Celera9107,814,579 - 107,872,572 (-)NCBICelera
Cytogenetic Map9F1- F2NCBI
cM Map959.08NCBI
Dag1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555321,397,900 - 1,466,312 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555321,446,553 - 1,465,310 (+)NCBIChiLan1.0ChiLan1.0
DAG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1350,637,707 - 50,703,852 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl350,640,615 - 50,703,852 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0349,396,180 - 49,464,689 (+)NCBIMhudiblu_PPA_v0panPan3
DAG1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12039,707,672 - 39,779,094 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2039,708,053 - 39,778,550 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2039,627,718 - 39,697,490 (-)NCBI
ROS_Cfam_1.02040,064,114 - 40,135,683 (-)NCBI
UMICH_Zoey_3.12039,432,635 - 39,502,839 (-)NCBI
UNSW_CanFamBas_1.02039,836,035 - 39,906,605 (-)NCBI
UU_Cfam_GSD_1.02040,115,684 - 40,185,987 (-)NCBI
Dag1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560264,339,013 - 64,411,089 (+)NCBI
SpeTri2.0NW_0049365291,099,510 - 1,171,587 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DAG1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1332,029,329 - 32,092,453 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11332,028,019 - 32,092,450 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
DAG1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12210,864,058 - 10,934,179 (+)NCBI
ChlSab1.1 Ensembl2210,865,724 - 10,934,200 (+)Ensembl
Vero_WHO_p1.0NW_023666041156,068,731 - 156,143,284 (-)NCBI
Dag1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247303,417,356 - 3,488,300 (+)NCBI

Position Markers
Dag1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,894,531 - 108,894,777 (+)MAPPERmRatBN7.2
Rnor_6.08116,984,107 - 116,984,352NCBIRnor6.0
Rnor_5.08116,337,782 - 116,338,027UniSTSRnor5.0
RGSC_v3.48113,474,477 - 113,474,722UniSTSRGSC3.4
Celera8108,198,886 - 108,199,131UniSTS
Cytogenetic Map8q32UniSTS
BG378140  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,894,377 - 108,894,495 (+)MAPPERmRatBN7.2
Rnor_6.08116,983,953 - 116,984,070NCBIRnor6.0
Rnor_5.08116,337,628 - 116,337,745UniSTSRnor5.0
RGSC_v3.48113,474,323 - 113,474,440UniSTSRGSC3.4
Celera8108,198,731 - 108,198,849UniSTS
RH 3.4 Map81117.3UniSTS
Cytogenetic Map8q32UniSTS
RH135177  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,892,138 - 108,892,355 (+)MAPPERmRatBN7.2
Rnor_6.08116,981,714 - 116,981,930NCBIRnor6.0
Rnor_5.08116,335,389 - 116,335,605UniSTSRnor5.0
RGSC_v3.48113,472,084 - 113,472,300UniSTSRGSC3.4
Celera8108,196,492 - 108,196,708UniSTS
RH 3.4 Map81118.6UniSTS
Cytogenetic Map8q32UniSTS
RH125695  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,891,055 - 108,891,213 (+)MAPPERmRatBN7.2
Rnor_6.08116,980,631 - 116,980,788NCBIRnor6.0
Rnor_5.08116,334,306 - 116,334,463UniSTSRnor5.0
RGSC_v3.48113,471,001 - 113,471,158UniSTSRGSC3.4
Celera8108,195,409 - 108,195,566UniSTS
Cytogenetic Map8q32UniSTS
SSC24F05  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,892,012 - 108,892,172 (+)MAPPERmRatBN7.2
Rnor_6.08116,981,588 - 116,981,747NCBIRnor6.0
Rnor_5.08116,335,263 - 116,335,422UniSTSRnor5.0
RGSC_v3.48113,471,958 - 113,472,117UniSTSRGSC3.4
Celera8108,196,366 - 108,196,525UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:73
Count of miRNA genes:68
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000026327
Prediction methods:Microtar, 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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026327   ⟹   ENSRNOP00000026327
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8108,890,929 - 108,952,325 (-)Ensembl
Rnor_6.0 Ensembl8116,980,497 - 116,993,193 (-)Ensembl
RefSeq Acc Id: NM_053697   ⟹   NP_446149
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,926 - 108,903,609 (-)NCBI
Rnor_6.08116,980,501 - 116,993,182 (-)NCBI
Rnor_5.08116,334,176 - 116,346,857 (-)NCBI
Celera8108,195,279 - 108,207,962 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080664   ⟹   XP_038936592
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,952,177 (-)NCBI
RefSeq Acc Id: XM_039080665   ⟹   XP_038936593
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,952,363 (-)NCBI
RefSeq Acc Id: XM_039080666   ⟹   XP_038936594
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,955,611 (-)NCBI
RefSeq Acc Id: XM_039080667   ⟹   XP_038936595
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,951,904 (-)NCBI
RefSeq Acc Id: XM_039080668   ⟹   XP_038936596
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,952,177 (-)NCBI
RefSeq Acc Id: XM_039080669   ⟹   XP_038936597
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,952,363 (-)NCBI
RefSeq Acc Id: XM_039080670   ⟹   XP_038936598
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,955,545 (-)NCBI
RefSeq Acc Id: XM_039080672   ⟹   XP_038936600
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28108,890,928 - 108,952,177 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_446149   ⟸   NM_053697
- Peptide Label: precursor
- UniProtKB: F1M8K0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026327   ⟸   ENSRNOT00000026327
RefSeq Acc Id: XP_038936594   ⟸   XM_039080666
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936598   ⟸   XM_039080670
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936597   ⟸   XM_039080669
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936593   ⟸   XM_039080665
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936600   ⟸   XM_039080672
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936596   ⟸   XM_039080668
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936592   ⟸   XM_039080664
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936595   ⟸   XM_039080667
- Peptide Label: isoform X1
Protein Domains
DAG1   Peptidase S72

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 (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (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
F344/NRrrc (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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/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)
FHH/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
FHL/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)
FHL/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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (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)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (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
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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
LEW/NCrlBR (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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (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
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (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
MNS/Gib (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
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/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
MWF/Hsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (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
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WAG/RijCrl (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (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
WKY/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/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
WKY/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (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
WKY/NHsd (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
WN/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621890 AgrOrtholog
Ensembl Genes ENSRNOG00000019400 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026327 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026327 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.30.70.1040 UniProtKB/TrEMBL
InterPro Alpha-dystroglycan_domain_2 UniProtKB/TrEMBL
  Alpha_DG1_N2 UniProtKB/TrEMBL
  Cadg UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  DAG1 UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  SEA_DG_dom UniProtKB/TrEMBL
KEGG Report rno:114489 UniProtKB/TrEMBL
NCBI Gene 114489 ENTREZGENE
Pfam a_DG1_N2 UniProtKB/TrEMBL
  DAG1 UniProtKB/TrEMBL
PhenoGen Dag1 PhenoGen
PROSITE SEA_DG UniProtKB/TrEMBL
SMART CADG UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
  SSF111006 UniProtKB/TrEMBL
UniProt F1M8K0 ENTREZGENE, UniProtKB/TrEMBL
  Q91XP6_RAT UniProtKB/TrEMBL
  Q91XP7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Dag1  dystroglycan 1  Dag1  dystroglycan 1 (dystrophin-associated glycoprotein 1)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Dag1  dystroglycan 1 (dystrophin-associated glycoprotein 1)  Dag1  dystroglycan 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Dag1  dystroglycan 1      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 dag1  dystroglycan 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation expression is reduced by thyrotropin (TSH) 632564