Cfl1 (cofilin 1) - Rat Genome Database

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Gene: Cfl1 (cofilin 1) Rattus norvegicus
Analyze
Symbol: Cfl1
Name: cofilin 1
RGD ID: 69285
Description: Exhibits actin filament binding activity; phosphatidylinositol bisphosphate binding activity; and protein phosphatase binding activity. Involved in several processes, including cellular response to cytokine stimulus; negative regulation of cellular component organization; and positive regulation of cellular component organization. Localizes to several cellular components, including cofilin-actin rod; glutamatergic synapse; and lamellipodium. Used to study myocardial infarction. Biomarker of several diseases, including epilepsy (multiple); impotence; muscular atrophy; ureteral obstruction; and vitamin B12 deficiency. Orthologous to human CFL1 (cofilin 1); PARTICIPATES IN insulin responsive facilitative sugar transporter mediated glucose transport pathway; Rab family mediated signaling pathway; Fc gamma receptor mediated signaling pathway; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cofilin 1 non-muscle; cofilin 1, non-muscle; cofilin, non-muscle isoform; cofilin-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21202,796,012 - 202,801,337 (+)NCBI
Rnor_6.0 Ensembl1220,869,805 - 220,873,337 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01220,869,805 - 220,873,337 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01227,799,126 - 227,802,658 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41208,133,876 - 208,137,408 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11208,287,328 - 208,290,861 (+)NCBI
Celera1200,333,275 - 200,336,807 (+)NCBICelera
Cytogenetic Map1q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxynon-2-enal  (ISO)
5-(1,4-diazepane-1-sulfonyl)isoquinoline  (EXP,ISO)
8-(4-chlorophenylthio)-cAMP  (EXP)
acetamide  (EXP)
aconitine  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
bromobenzene  (EXP)
buspirone  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP)
calcium atom  (ISO)
calcium(0)  (ISO)
capsaicin  (ISO)
carbon nanotube  (ISO)
carvedilol  (EXP)
chloropicrin  (ISO)
ciguatoxin CTX1B  (ISO)
clobetasol  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
CU-O LINKAGE  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenzo[a,l]pyrene  (ISO)
dibutyl phthalate  (EXP,ISO)
dichlorine  (EXP)
dihydroartemisinin  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dopamine  (ISO)
doxorubicin  (EXP,ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP,ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
fasudil hydrochloride  (EXP,ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (EXP,ISO)
formaldehyde  (EXP)
fumonisin B1  (ISO)
gentamycin  (EXP)
glucose  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP,ISO)
indometacin  (ISO)
ionomycin  (ISO)
isoflurane  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
lithocholic acid  (ISO)
lovastatin  (EXP)
methylmercury(1+)  (ISO)
miconazole  (ISO)
Monobutylphthalate  (ISO)
myricetin  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
okadaic acid  (ISO)
ozone  (EXP)
paracetamol  (ISO)
paraquat  (EXP)
PCB138  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
potassium hydroxide  (ISO)
probucol  (ISO)
progesterone  (ISO)
quercetin  (ISO)
quinpirole  (ISO)
resveratrol  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
silver(1+) nitrate  (ISO)
sodium dichromate  (EXP)
sodium dodecyl sulfate  (ISO)
Soman  (EXP)
streptozocin  (EXP)
T-2 toxin  (EXP)
tetraphene  (ISO)
titanium dioxide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
Y-27632  (EXP,ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin filament depolymerization  (IBA,ISO)
actin filament fragmentation  (IBA,ISO)
actin filament organization  (ISO,ISS)
actin filament severing  (IBA)
cell motility  (IBA)
cell projection organization  (IDA)
cellular response to epidermal growth factor stimulus  (IEP,IMP)
cellular response to ether  (IEP)
cellular response to hydrogen peroxide  (IDA)
cellular response to insulin-like growth factor stimulus  (IDA)
cellular response to interleukin-1  (IDA)
cellular response to interleukin-6  (IDA)
cellular response to tumor necrosis factor  (IDA)
cytoskeleton organization  (ISO,ISS)
establishment of cell polarity  (ISO)
establishment of spindle localization  (ISO,ISS)
hippocampus development  (IEP)
mitotic cytokinesis  (ISO)
modification of postsynaptic actin cytoskeleton  (EXP,IDA)
negative regulation of actin filament bundle assembly  (IMP)
negative regulation of actin filament depolymerization  (IMP)
negative regulation of cell adhesion  (IMP)
negative regulation of cell motility  (IMP)
negative regulation of cell size  (IDA)
negative regulation of dendritic spine maintenance  (IMP,NAS)
negative regulation of lamellipodium assembly  (IMP)
negative regulation of postsynaptic density organization  (IMP)
negative regulation of unidimensional cell growth  (IMP)
neural crest cell migration  (ISO)
neural fold formation  (ISO)
positive regulation by host of viral process  (ISO)
positive regulation of actin filament depolymerization  (ISO)
positive regulation of barbed-end actin filament capping  (IMP)
positive regulation of cell growth  (IMP)
positive regulation of cell motility  (IMP)
positive regulation of dendritic spine development  (IMP)
positive regulation of embryonic development  (ISO,ISS)
positive regulation of establishment of cell polarity regulating cell shape  (IMP)
positive regulation of focal adhesion assembly  (IMP)
positive regulation of lamellipodium assembly  (IMP)
positive regulation of NMDA glutamate receptor activity  (IMP)
positive regulation of protein localization to cell leading edge  (IMP)
positive regulation of proteolysis  (IMP)
positive regulation of synaptic plasticity  (IMP)
protein import into nucleus  (IMP)
protein phosphorylation  (ISO)
regulation of cell morphogenesis  (ISO,ISS)
regulation of dendritic spine morphogenesis  (ISO,ISS)
response to activity  (IEP)
response to amino acid  (ISO)
response to organic cyclic compound  (IEP)
response to virus  (ISO)

Cellular Component

Molecular Function

References

References - curated
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2. Birkenfeld J, etal., Biochem J. 2003 Jan 1;369(Pt 1):45-54.
3. Bravo-Cordero JJ, etal., J Cell Sci. 2013 Aug 1;126(Pt 15):3356-69. doi: 10.1242/jcs.123547. Epub 2013 May 23.
4. Calabrese B, etal., PLoS One. 2014 Apr 16;9(4):e94787. doi: 10.1371/journal.pone.0094787. eCollection 2014.
5. Chen LJ, etal., Exp Neurol. 2015 Apr;266:86-98. doi: 10.1016/j.expneurol.2015.02.014. Epub 2015 Feb 20.
6. Chiu TT, etal., Mol Biol Cell. 2010 Oct 15;21(20):3529-39. doi: 10.1091/mbc.E10-04-0316. Epub 2010 Aug 25.
7. Cho IH, etal., Cell Mol Life Sci. 2013 Nov;70(22):4369-83. doi: 10.1007/s00018-013-1391-4. Epub 2013 Jun 14.
8. Cho MC, etal., J Urol. 2015 May;193(5):1716-23. doi: 10.1016/j.juro.2014.10.099. Epub 2014 Oct 27.
9. Choi CH, etal., Mol Biol Cell. 2010 Sep 15;21(18):3162-70. doi: 10.1091/mbc.E09-12-1058. Epub 2010 Jul 28.
10. Delorme-Walker V, etal., Proc Natl Acad Sci U S A. 2015 Sep 15;112(37):E5150-9. doi: 10.1073/pnas.1510945112. Epub 2015 Aug 31.
11. DesMarais V, etal., J Cell Sci. 2004 Jul 15;117(Pt 16):3499-510.
12. Duffney LJ, etal., J Neurosci. 2013 Oct 2;33(40):15767-78. doi: 10.1523/JNEUROSCI.1175-13.2013.
13. Frantz C, etal., J Cell Biol. 2008 Dec 1;183(5):865-79. doi: 10.1083/jcb.200804161. Epub 2008 Nov 24.
14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. GOA data from the GO Consortium
16. Hayama T, etal., Nat Neurosci. 2013 Oct;16(10):1409-16. doi: 10.1038/nn.3496. Epub 2013 Aug 25.
17. Huang X, etal., J Biol Chem. 2013 Dec 20;288(51):36418-25. doi: 10.1074/jbc.M113.495713. Epub 2013 Nov 8.
18. Kim MY, etal., J Phys Ther Sci. 2014 Mar;26(3):355-7. doi: 10.1589/jpts.26.355. Epub 2014 Mar 25.
19. Lai D, etal., J Mol Med (Berl). 2016 Aug 30.
20. Lauterborn JC, etal., Cereb Cortex. 2016 Apr 12. pii: bhw088.
21. Lee TM, etal., J Mol Med (Berl). 2014 Jan;92(1):43-51. doi: 10.1007/s00109-013-1103-4. Epub 2013 Nov 29.
22. Li X, etal., Exp Biol Med (Maywood). 2014 Aug;239(8):922-936. Epub 2014 Apr 15.
23. Li Y, etal., Sci Signal. 2014 Jun 24;7(331):ra61. doi: 10.1126/scisignal.2005353.
24. Marques-Aleixo I, etal., Mitochondrion. 2016 Jan;26:43-57. doi: 10.1016/j.mito.2015.12.002. Epub 2015 Dec 8.
25. MGD data from the GO Consortium
26. Morishita W, etal., Nat Neurosci. 2005 Aug;8(8):1043-50. doi: 10.1038/nn1506. Epub 2005 Jul 17.
27. NCBI rat LocusLink and RefSeq merged data July 26, 2002
28. Newell-Litwa KA, etal., J Cell Biol. 2015 Jul 20;210(2):225-42. doi: 10.1083/jcb.201504046. Epub 2015 Jul 13.
29. Oser M, etal., J Cell Biol. 2009 Aug 24;186(4):571-87. doi: 10.1083/jcb.200812176.
30. Pendleton A, etal., J Biol Chem 2003 Apr 18;278(16):14394-400.
31. Pipeline to import KEGG annotations from KEGG into RGD
32. Qiu Y, etal., Neurochem Res. 2016 Sep;41(9):2457-69. doi: 10.1007/s11064-016-1958-1. Epub 2016 May 23.
33. RGD automated data pipeline
34. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
35. RGD automated import pipeline for gene-chemical interactions
36. Samuel F, etal., Mol Neurobiol. 2014 Aug;50(1):49-59. doi: 10.1007/s12035-014-8653-5. Epub 2014 Feb 11.
37. Shankar GM, etal., J Neurosci. 2007 Mar 14;27(11):2866-75.
38. Shaw PX, etal., Exp Eye Res. 2016 Jul 18. pii: S0014-4835(16)30181-6. doi: 10.1016/j.exer.2016.07.006.
39. Shen S, etal., J Proteome Res. 2016 May 6;15(5):1702-16. doi: 10.1021/acs.jproteome.6b00137. Epub 2016 Apr 11.
40. Simonishvili S, etal., ASN Neuro. 2013 Dec 23;5(5):e00131. doi: 10.1042/AN20130027.
41. Song J, etal., Int J Dev Neurosci. 2014 Apr;33:8-14. doi: 10.1016/j.ijdevneu.2013.10.008. Epub 2013 Nov 14.
42. Song SH, etal., J Sex Med. 2015 Jul;12(7):1522-32. doi: 10.1111/jsm.12903. Epub 2015 Apr 28.
43. Stodkilde L, etal., Am J Physiol Renal Physiol. 2014 Jun 15;306(12):F1429-41. doi: 10.1152/ajprenal.00244.2013. Epub 2014 Apr 23.
44. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
45. Tahtamouni LH, etal., BMC Cell Biol. 2013 Oct 5;14:45. doi: 10.1186/1471-2121-14-45.
46. Tavazoie SF, etal., Nat Neurosci. 2005 Dec;8(12):1727-34. Epub 2005 Nov 6.
47. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
48. Tsubota T, etal., PLoS Biol. 2015 Feb 27;13(2):e1002070. doi: 10.1371/journal.pbio.1002070. eCollection 2015 Feb.
49. Tsverava L, etal., Biomed Res Int. 2016;2016:2794096. doi: 10.1155/2016/2794096. Epub 2016 Aug 23.
50. Walsh KP, etal., PLoS One. 2014 Apr 23;9(4):e95995. doi: 10.1371/journal.pone.0095995. eCollection 2014.
51. Wang J, etal., Epilepsy Res. 2014 Sep;108(7):1174-83. doi: 10.1016/j.eplepsyres.2014.06.001. Epub 2014 Jun 14.
52. Wang QZ, etal., J Transl Med. 2015 Oct 8;13:323. doi: 10.1186/s12967-015-0685-8.
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Additional References at PubMed
PMID:9078368   PMID:9877327   PMID:11139403   PMID:11809832   PMID:11812157   PMID:14627549   PMID:15004221   PMID:15337778   PMID:15489334   PMID:15532723   PMID:15548599   PMID:15606898  
PMID:15649475   PMID:16548883   PMID:16803871   PMID:16854843   PMID:17018287   PMID:17110338   PMID:17113383   PMID:17993279   PMID:19190083   PMID:19199708   PMID:19542631   PMID:19654210  
PMID:19946888   PMID:20442266   PMID:20458337   PMID:20610540   PMID:20696146   PMID:20971191   PMID:21187345   PMID:21423176   PMID:21474314   PMID:21715328   PMID:21834987   PMID:22117609  
PMID:22317922   PMID:22496574   PMID:22855535   PMID:22871113   PMID:22981401   PMID:23106098   PMID:23376485   PMID:23533145   PMID:23537649   PMID:23580065   PMID:23793062   PMID:23921380  
PMID:23979707   PMID:24006456   PMID:24052308   PMID:24096734   PMID:24464040   PMID:24625528   PMID:25107909   PMID:25556234   PMID:28791377   PMID:29162887   PMID:29476059   PMID:29932353  
PMID:31400829   PMID:32015554  


Genomics

Comparative Map Data
Cfl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21202,796,012 - 202,801,337 (+)NCBI
Rnor_6.0 Ensembl1220,869,805 - 220,873,337 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01220,869,805 - 220,873,337 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01227,799,126 - 227,802,658 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41208,133,876 - 208,137,408 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11208,287,328 - 208,290,861 (+)NCBI
Celera1200,333,275 - 200,336,807 (+)NCBICelera
Cytogenetic Map1q43NCBI
CFL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1165,823,022 - 65,862,026 (-)EnsemblGRCh38hg38GRCh38
GRCh381165,854,673 - 65,858,180 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371165,622,144 - 65,625,651 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361165,378,858 - 65,382,380 (-)NCBINCBI36hg18NCBI36
Build 341165,378,862 - 65,382,380NCBI
Celera1162,946,188 - 62,949,710 (-)NCBI
Cytogenetic Map11q13.1NCBI
HuRef1161,948,799 - 61,952,321 (-)NCBIHuRef
CHM1_11165,506,695 - 65,510,217 (-)NCBICHM1_1
Cfl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39195,540,483 - 5,544,059 (+)NCBIGRCm39mm39
GRCm39 Ensembl195,540,483 - 5,545,229 (+)Ensembl
GRCm38195,490,455 - 5,494,031 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl195,490,455 - 5,495,201 (+)EnsemblGRCm38mm10GRCm38
MGSCv37195,490,455 - 5,494,031 (+)NCBIGRCm37mm9NCBIm37
MGSCv36195,490,525 - 5,495,201 (+)NCBImm8
Celera195,362,154 - 5,365,730 (+)NCBICelera
Cytogenetic Map19ANCBI
Cfl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542219,479,181 - 19,482,571 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542219,479,181 - 19,482,571 (+)NCBIChiLan1.0ChiLan1.0
CFL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11164,544,275 - 64,548,372 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1164,544,275 - 64,550,806 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01161,215,092 - 61,218,628 (-)NCBIMhudiblu_PPA_v0panPan3
CFL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11851,404,649 - 51,408,240 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1851,401,659 - 51,408,212 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1850,013,157 - 50,016,753 (+)NCBI
ROS_Cfam_1.01852,442,507 - 52,446,103 (+)NCBI
UMICH_Zoey_3.11851,542,563 - 51,546,159 (+)NCBI
UNSW_CanFamBas_1.01851,116,937 - 51,120,532 (+)NCBI
UU_Cfam_GSD_1.01851,906,246 - 51,909,842 (+)NCBI
Cfl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049477,236,442 - 7,239,965 (+)NCBI
SpeTri2.0NW_0049365993,678,724 - 3,682,314 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CFL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl26,469,254 - 6,475,035 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.126,471,558 - 6,475,019 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.225,575,587 - 5,579,048 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CFL1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.118,408,560 - 8,410,564 (+)NCBI
Vero_WHO_p1.0NW_023666038105,687,711 - 105,692,145 (+)NCBI
Cfl1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476720,574,884 - 20,578,413 (+)NCBI

Position Markers
Cfl1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01056,562,267 - 56,563,141NCBIRnor6.0
Rnor_5.01056,307,386 - 56,308,260UniSTSRnor5.0
RGSC_v3.41056,795,989 - 56,796,862UniSTSRGSC3.4
Celera1053,829,226 - 53,830,099UniSTS
Cytogenetic Map1q43UniSTS
Cfl1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01220,872,010 - 220,872,742NCBIRnor6.0
Rnor_6.08116,573,307 - 116,573,480NCBIRnor6.0
Rnor_5.08115,927,896 - 115,928,069UniSTSRnor5.0
Rnor_5.01227,801,331 - 227,802,063UniSTSRnor5.0
RGSC_v3.48113,065,789 - 113,065,962UniSTSRGSC3.4
RGSC_v3.41208,136,081 - 208,136,813UniSTSRGSC3.4
Celera1200,335,480 - 200,336,212UniSTS
Celera8107,796,645 - 107,796,818UniSTS
Cytogenetic Map1q43UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1217372257244992610Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1193220385238220385Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1215711860260711860Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1189514504234514504Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1198585664236763415Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1215828102260828102Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1216324817261324817Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1197963658242963658Rat
1331790Bp201Blood pressure QTL 2013.127arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1216213318245529710Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1205603081244401301Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1197187728230420772Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1215711860258765521Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1189170900234170900Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1189170900234170900Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1189170900234170900Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1189170900234170900Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1189170900234170900Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1189170900234170900Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198446729240017341Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291281795785Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1210960636236763528Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1215828102260828102Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1215684498260684498Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1194554354239554354Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1213476630278978026Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1201146802241482368Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1192639698278228889Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1185390068230390068Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1201358068221983732Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1196738546241738546Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1210360774264802828Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1198655722244992610Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1190282646235282646Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1216324817261324817Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1188850303233850303Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1215828102260828102Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1197187728238220385Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1202571665264802994Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1210652654255652654Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1194872362239872362Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:71
Count of miRNA genes:54
Interacting mature miRNAs:67
Transcripts:ENSRNOT00000015962
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.


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 2 12 10 6 7 6 65 18 26
Medium 1 31 47 35 12 35 8 11 9 17 15 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_017147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC109096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC059143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC086533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209459 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212794 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212910 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214438 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227487 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230091 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231379 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X62908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000015962   ⟹   ENSRNOP00000059624
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1220,869,805 - 220,873,337 (+)Ensembl
RefSeq Acc Id: NM_017147   ⟹   NP_058843
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21202,797,799 - 202,801,331 (+)NCBI
Rnor_6.01220,869,805 - 220,873,337 (+)NCBI
Rnor_5.01227,799,126 - 227,802,658 (+)NCBI
RGSC_v3.41208,133,876 - 208,137,408 (+)RGD
Celera1200,333,275 - 200,336,807 (+)RGD
Sequence:
RefSeq Acc Id: XM_039104068   ⟹   XP_038959996
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21202,796,012 - 202,801,337 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_058843   ⟸   NM_017147
- UniProtKB: P45592 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000059624   ⟸   ENSRNOT00000015962
RefSeq Acc Id: XP_038959996   ⟸   XM_039104068
- Peptide Label: isoform X1
Protein Domains
ADF-H

Transcriptome

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

Promoters
RGD ID:13690661
Promoter ID:EPDNEW_R1186
Type:multiple initiation site
Name:Cfl1_1
Description:cofilin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01220,869,802 - 220,869,862EPDNEW

Strain Variation

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


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 220872790 220872791 C A snv BN/SsN (MCW), WN/N (MCW), MR/N (MCW), Buf/N (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 208136861 208136862 C A snv BN/SsN (KNAW), BUF/N (KNAW), WN/N (KNAW), MR/N (KNAW), LE/Stm (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69285 AgrOrtholog
Ensembl Genes ENSRNOG00000020660 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000059624 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000015962 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.20.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6889053 IMAGE-MGC_LOAD
  IMAGE:7305422 IMAGE-MGC_LOAD
InterPro ADF-H UniProtKB/Swiss-Prot
  ADF-H/Gelsolin-like_dom_sf UniProtKB/Swiss-Prot
  ADF/Cofilin UniProtKB/Swiss-Prot
  Cofilin_1 UniProtKB/Swiss-Prot
KEGG Report rno:29271 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105258 IMAGE-MGC_LOAD
  MGC:72892 IMAGE-MGC_LOAD
NCBI Gene 29271 ENTREZGENE
PANTHER PTHR11913 UniProtKB/Swiss-Prot
  PTHR11913:SF17 UniProtKB/Swiss-Prot
Pfam Cofilin_ADF UniProtKB/Swiss-Prot
PhenoGen Cfl1 PhenoGen
PRINTS COFILIN UniProtKB/Swiss-Prot
PROSITE ADF_H UniProtKB/Swiss-Prot
SMART ADF UniProtKB/Swiss-Prot
TIGR TC228547
UniProt COF1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Cfl1  cofilin 1  Cfl1  cofilin 1, non-muscle  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Cfl1  cofilin 1, non-muscle    cofilin 1  Name updated 1299863 APPROVED
2002-06-10 Cfl1  cofilin 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference