Cttn (cortactin) - Rat Genome Database

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Gene: Cttn (cortactin) Rattus norvegicus
Analyze
Symbol: Cttn
Name: cortactin
RGD ID: 619839
Description: Exhibits Arp2/3 complex binding activity and proline-rich region binding activity. Involved in several processes, including focal adhesion assembly; modification of postsynaptic actin cytoskeleton; and plasma membrane bounded cell projection organization. Localizes to clathrin-coated pit; glutamatergic synapse; and postsynaptic actin cytoskeleton. Colocalizes with several cellular components, including actin filament; focal adhesion; and growth cone. Orthologous to human CTTN (cortactin); PARTICIPATES IN E-cadherin signaling pathway; fibroblast growth factor signaling pathway; N-cadherin signaling pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cortactin isoform B; Cttnb; MGC93456; src substrate cortactin
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
mRatBN7.21199,599,710 - 199,635,254 (-)NCBI
Rnor_6.0 Ensembl1215,255,381 - 215,290,845 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1217,602,698 - 217,638,152 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01215,255,385 - 215,290,882 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.01217,602,698 - 217,638,196 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01224,459,485 - 224,494,974 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01222,159,088 - 222,194,579 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41204,865,768 - 204,901,221 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11205,020,464 - 205,048,384 (-)NCBI
Celera1197,159,379 - 197,194,704 (-)NCBICelera
RH 3.4 Map11561.5RGD
Cytogenetic Map1q41-q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dimethylhydrazine  (ISO)
1,8-cineole  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-ethoxyethanol  (EXP)
2-methoxyethanol  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxynon-2-enal  (ISO)
4-nitroquinoline N-oxide  (ISO)
5-fluorouracil  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
chloroacetaldehyde  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (ISO)
diarsenic trioxide  (ISO)
dibenzo[a,l]pyrene  (ISO)
dibutyl phthalate  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP,ISO)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
glucose  (ISO)
hexadecanoic acid  (ISO)
ifosfamide  (ISO)
isotretinoin  (ISO)
lead diacetate  (ISO)
metformin  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (ISO)
methylparaben  (ISO)
microcystin-LR  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
nickel subsulfide  (ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
phosgene  (ISO)
potassium dichromate  (ISO)
probucol  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
simvastatin  (ISO)
sodium arsenite  (EXP,ISO)
tanespimycin  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. Cai L, etal., Cell. 2008 Sep 5;134(5):828-42. doi: 10.1016/j.cell.2008.06.054.
2. Cao H, etal., Mol Cell Biol 2003 Mar;23(6):2162-70.
3. Cao H, etal., Mol Cell Biol. 2010 Feb;30(3):781-92. doi: 10.1128/MCB.00330-09. Epub 2009 Dec 7.
4. Desmarais V, etal., Cell Motil Cytoskeleton. 2009 Jun;66(6):303-16. doi: 10.1002/cm.20361.
5. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. GOA data from the GO Consortium
7. Gray NW, etal., J Cell Sci. 2005 Mar 15;118(Pt 6):1279-90. Epub 2005 Mar 1.
8. Hattan D, etal., J Biol Chem. 2002 Oct 11;277(41):38596-606. Epub 2002 Jul 31.
9. Hering H and Sheng M, J Neurosci. 2003 Dec 17;23(37):11759-69.
10. Kaneko T, etal., J Endod. 2010 Mar;36(3):459-64.
11. Kruchten AE, etal., Am J Physiol Cell Physiol. 2008 Nov;295(5):C1113-22. doi: 10.1152/ajpcell.00238.2008. Epub 2008 Sep 3.
12. Kurklinsky S, etal., J Neurochem. 2011 Apr;117(1):48-60. doi: 10.1111/j.1471-4159.2011.07169.x. Epub 2011 Feb 9.
13. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
14. MGD data from the GO Consortium
15. NCBI rat LocusLink and RefSeq merged data July 26, 2002
16. Ohoka Y and Takai Y, Genes Cells 1998 Sep;3(9):603-12.
17. Ortiz DF, etal., J Biol Chem 2004 Jul 30;279(31):32761-70. Epub 2004 May 24.
18. Oser M, etal., J Cell Biol. 2009 Aug 24;186(4):571-87. doi: 10.1083/jcb.200812176.
19. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
20. Racz B and Weinberg RJ, J Neurosci. 2004 Nov 17;24(46):10310-7.
21. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
22. RGD automated import pipeline for gene-chemical interactions
23. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:10637315   PMID:10760273   PMID:11583995   PMID:12853475   PMID:12913069   PMID:14742709   PMID:15383621   PMID:15522889   PMID:15821732   PMID:16162656   PMID:16533564   PMID:17893324  
PMID:17959782   PMID:17959830   PMID:18353971   PMID:19414610   PMID:19540230   PMID:19605363   PMID:19684413   PMID:20457763   PMID:21423176   PMID:21725361   PMID:22282019   PMID:22660580  
PMID:23038781   PMID:23365224   PMID:23376485   PMID:23536706   PMID:24700464   PMID:25468996   PMID:26261183   PMID:28235806   PMID:29515177  


Genomics

Comparative Map Data
Cttn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21199,599,710 - 199,635,254 (-)NCBI
Rnor_6.0 Ensembl1215,255,381 - 215,290,845 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1217,602,698 - 217,638,152 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01215,255,385 - 215,290,882 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.01217,602,698 - 217,638,196 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01224,459,485 - 224,494,974 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01222,159,088 - 222,194,579 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41204,865,768 - 204,901,221 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11205,020,464 - 205,048,384 (-)NCBI
Celera1197,159,379 - 197,194,704 (-)NCBICelera
RH 3.4 Map11561.5RGD
Cytogenetic Map1q41-q42NCBI
CTTN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1170,398,404 - 70,436,584 (+)EnsemblGRCh38hg38GRCh38
GRCh381170,398,529 - 70,436,579 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371170,244,635 - 70,282,681 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361169,922,292 - 69,960,338 (+)NCBINCBI36hg18NCBI36
Build 341169,922,291 - 69,960,337NCBI
Celera1167,505,807 - 67,543,876 (+)NCBI
Cytogenetic Map11q13.3NCBI
HuRef1166,505,811 - 66,543,873 (+)NCBIHuRef
CHM1_11170,128,086 - 70,166,161 (+)NCBICHM1_1
Cttn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397143,989,461 - 144,024,743 (-)NCBIGRCm39mm39
GRCm39 Ensembl7143,989,470 - 144,024,746 (-)Ensembl
GRCm387144,435,724 - 144,471,560 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7144,435,733 - 144,471,009 (-)EnsemblGRCm38mm10GRCm38
MGSCv377151,621,629 - 151,656,646 (-)NCBIGRCm37mm9NCBIm37
MGSCv367144,245,114 - 144,280,131 (-)NCBImm8
Celera7144,198,389 - 144,233,423 (-)NCBICelera
Cytogenetic Map7F5NCBI
Cttn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542215,835,145 - 15,874,108 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542215,838,036 - 15,874,067 (-)NCBIChiLan1.0ChiLan1.0
CTTN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11168,792,135 - 68,823,859 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1168,794,162 - 68,823,857 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01165,500,074 - 65,539,158 (+)NCBIMhudiblu_PPA_v0panPan3
CTTN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11847,932,367 - 47,960,732 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1847,916,632 - 47,960,674 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1846,539,259 - 46,571,258 (-)NCBI
ROS_Cfam_1.01848,606,497 - 48,638,577 (-)NCBI
UMICH_Zoey_3.11848,053,474 - 48,085,478 (-)NCBI
UNSW_CanFamBas_1.01847,639,312 - 47,671,323 (-)NCBI
UU_Cfam_GSD_1.01848,385,244 - 48,417,504 (-)NCBI
Cttn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049474,038,885 - 4,063,551 (-)NCBI
SpeTri2.0NW_004936599481,234 - 503,857 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CTTN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl23,031,102 - 3,060,855 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.123,031,103 - 3,060,796 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.221,444,656 - 1,455,002 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CTTN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.114,139,045 - 4,176,962 (-)NCBI
ChlSab1.1 Ensembl14,137,814 - 4,176,446 (-)Ensembl
Vero_WHO_p1.0NW_023666038101,394,443 - 101,445,469 (-)NCBI
Cttn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476716,842,341 - 16,884,449 (-)NCBI

Position Markers
RH142385  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map11561.5UniSTS
Cytogenetic Map1q41-q42UniSTS
RH126596  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21199,599,777 - 199,599,987 (+)MAPPER
Rnor_6.01215,255,453 - 215,255,662NCBIRnor6.0
Rnor_6.01217,602,766 - 217,602,975NCBIRnor6.0
Rnor_5.01222,159,156 - 222,159,365UniSTSRnor5.0
Rnor_5.01224,459,553 - 224,459,762UniSTSRnor5.0
RGSC_v3.41204,865,836 - 204,866,045UniSTSRGSC3.4
Celera1197,159,447 - 197,159,656UniSTS
Cytogenetic Map1q41-q42UniSTS


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
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)199983293216325819Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1126240667217054291Rat
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
631260Tcas2Tongue tumor susceptibility QTL 24.93tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1210019247217054418Rat
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
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)199983293216213510Rat
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
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
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
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
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
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
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
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
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
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1154337847215828102Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1215828102260828102Rat
6480773Gluco64Glucose level QTL 645.09blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1217054291218614387Rat
6480777Insul17Insulin level QTL 173.86blood insulin amount (VT:0001560)blood insulin level area under curve (AUC) (CMO:0000351)1215097781216213510Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1206950905218614387Rat
6480783Insul19Insulin level QTL 194.33blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1215494321218614387Rat
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
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
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:903
Count of miRNA genes:210
Interacting mature miRNAs:244
Transcripts:ENSRNOT00000028283, ENSRNOT00000047669, ENSRNOT00000054859
Prediction methods:Microtar, 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

circulatory system endocrine system exocrine system hepatobiliary system nervous system renal system reproductive system respiratory system
High
Medium
Low 10 2 2 2 53 20 28
Below cutoff 22 28 28 28 10 4 4 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_021868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230891 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017590270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC125304 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF054618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF054619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000028283   ⟹   ENSRNOP00000028283
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1215,255,386 - 215,290,838 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000047669   ⟹   ENSRNOP00000050255
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1215,255,381 - 215,290,845 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000054859   ⟹   ENSRNOP00000051742
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,602,698 - 217,638,118 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000078514   ⟹   ENSRNOP00000070873
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,603,942 - 217,631,862 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079805   ⟹   ENSRNOP00000072540
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,603,942 - 217,631,862 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090375   ⟹   ENSRNOP00000073253
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1215,256,629 - 215,284,548 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092783   ⟹   ENSRNOP00000076003
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,604,892 - 217,620,420 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092916   ⟹   ENSRNOP00000075952
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,602,698 - 217,638,152 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092977
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1217,603,922 - 217,605,397 (-)Ensembl
RefSeq Acc Id: NM_021868   ⟹   NP_068640
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,168 (-)NCBI
Rnor_6.01217,602,698 - 217,638,152 (-)NCBI
Rnor_5.01224,459,485 - 224,494,974 (-)NCBI
RGSC_v3.41204,865,768 - 204,901,221 (-)RGD
Celera1197,159,379 - 197,194,704 (-)RGD
Sequence:
RefSeq Acc Id: XM_006230622   ⟹   XP_006230684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,253 (-)NCBI
Rnor_6.01215,255,385 - 215,290,882 (-)NCBI
Rnor_5.01222,159,088 - 222,194,579 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006230625   ⟹   XP_006230687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,253 (-)NCBI
Rnor_6.01215,255,385 - 215,290,882 (-)NCBI
Rnor_5.01222,159,088 - 222,194,579 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006230889   ⟹   XP_006230951
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,602,698 - 217,638,196 (-)NCBI
Rnor_5.01224,459,485 - 224,494,974 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006230891   ⟹   XP_006230953
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,602,698 - 217,638,196 (-)NCBI
Rnor_5.01224,459,485 - 224,494,974 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017590270   ⟹   XP_017445759
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01215,255,385 - 215,290,882 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039089006   ⟹   XP_038944934
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,254 (-)NCBI
RefSeq Acc Id: XM_039089013   ⟹   XP_038944941
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,254 (-)NCBI
RefSeq Acc Id: XM_039089019   ⟹   XP_038944947
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,253 (-)NCBI
RefSeq Acc Id: XM_039089022   ⟹   XP_038944950
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21199,599,710 - 199,635,254 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_068640   ⟸   NM_021868
- UniProtKB: Q66HL2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006230687   ⟸   XM_006230625
- Peptide Label: isoform X3
- UniProtKB: A0A0G2JZ13 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230684   ⟸   XM_006230622
- Peptide Label: isoform X1
- UniProtKB: D3ZGE6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230953   ⟸   XM_006230891
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006230951   ⟸   XM_006230889
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017445759   ⟸   XM_017590270
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000076003   ⟸   ENSRNOT00000092783
RefSeq Acc Id: ENSRNOP00000028283   ⟸   ENSRNOT00000028283
RefSeq Acc Id: ENSRNOP00000072540   ⟸   ENSRNOT00000079805
RefSeq Acc Id: ENSRNOP00000050255   ⟸   ENSRNOT00000047669
RefSeq Acc Id: ENSRNOP00000075952   ⟸   ENSRNOT00000092916
RefSeq Acc Id: ENSRNOP00000073253   ⟸   ENSRNOT00000090375
RefSeq Acc Id: ENSRNOP00000070873   ⟸   ENSRNOT00000078514
RefSeq Acc Id: ENSRNOP00000051742   ⟸   ENSRNOT00000054859
RefSeq Acc Id: XP_038944941   ⟸   XM_039089013
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038944950   ⟸   XM_039089022
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038944934   ⟸   XM_039089006
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038944947   ⟸   XM_039089019
- Peptide Label: isoform X5
Protein Domains
SH3

Transcriptome

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

Promoters
RGD ID:13690558
Promoter ID:EPDNEW_R1081
Type:initiation region
Name:Cttn_2
Description:cortactin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R1108  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01215,290,822 - 215,290,882EPDNEW
RGD ID:13690584
Promoter ID:EPDNEW_R1108
Type:multiple initiation site
Name:Cttn_1
Description:cortactin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R1081  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01217,638,167 - 217,638,227EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619839 AgrOrtholog
Ensembl Genes ENSRNOG00000047280 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00000050994 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000028283 UniProtKB/Swiss-Prot
  ENSRNOP00000050255 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000051742 UniProtKB/TrEMBL
  ENSRNOP00000070873 UniProtKB/TrEMBL
  ENSRNOP00000072540 UniProtKB/Swiss-Prot
  ENSRNOP00000073253 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075952 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000076003 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028283 UniProtKB/Swiss-Prot
  ENSRNOT00000047669 UniProtKB/TrEMBL
  ENSRNOT00000054859 UniProtKB/TrEMBL
  ENSRNOT00000078514 UniProtKB/TrEMBL
  ENSRNOT00000079805 UniProtKB/Swiss-Prot
  ENSRNOT00000090375 UniProtKB/TrEMBL
  ENSRNOT00000092783 UniProtKB/TrEMBL
  ENSRNOT00000092916 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7107292 IMAGE-MGC_LOAD
InterPro Cortactin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cortactin_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hs1_Cortactin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:60465 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93456 IMAGE-MGC_LOAD
NCBI Gene 60465 ENTREZGENE
PANTHER PTHR10829:SF15 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HS1_rep UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cttn PhenoGen
PRINTS SH3DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CORTACTIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JZ13 ENTREZGENE, UniProtKB/TrEMBL
  A0A1B0GWS4_RAT UniProtKB/TrEMBL
  D3ZGE6 ENTREZGENE, UniProtKB/TrEMBL
  Q66HL2 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary D3ZRB0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Cttn  cortactin    cortactin isoform B  Name updated 1299863 APPROVED
2004-09-10 Cttn  cortactin isoform B  Cttnb    Symbol and Name updated 1299863 APPROVED
2002-08-07 Cttnb  cortactin isoform B      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to plasma membrane ruffles 727733
gene_physical_interaction binds to large GTPase dynamin 727733