Dcc (DCC netrin 1 receptor) - Rat Genome Database

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Gene: Dcc (DCC netrin 1 receptor) Rattus norvegicus
Analyze
Symbol: Dcc
Name: DCC netrin 1 receptor
RGD ID: 2492
Description: Enables identical protein binding activity; netrin receptor activity; and transcription coactivator activity. Involved in several processes, including positive regulation of ERK1 and ERK2 cascade; positive regulation of neuron projection development; and response to amphetamine. Located in growth cone membrane and membrane raft. Human ortholog(s) of this gene implicated in colorectal cancer; congenital mirror movement disorder; esophageal cancer; and esophagus squamous cell carcinoma. Orthologous to human DCC (DCC netrin 1 receptor); PARTICIPATES IN colorectal cancer pathway; INTERACTS WITH 3,4-methylenedioxymethamphetamine; 6-propyl-2-thiouracil; androgen antagonist.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: colorectal tumor suppressor; Deleted in colcorectal cancer (rat homolog); deleted in colorectal carcinoma; netrin receptor DCC; putative colorectal tumor suppressor; tumor suppressor protein DCC
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: DccTn(sb-T2/Bart3)2.205Mcwi  
Genetic Models: F344-DccTn(sb-T2/Bart3)2.205Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21864,868,987 - 65,972,783 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1864,873,898 - 65,972,740 (-)Ensembl
Rnor_6.01866,518,213 - 67,629,801 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1866,523,120 - 67,224,566 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01865,688,901 - 66,793,126 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41868,026,795 - 69,140,741 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11868,099,995 - 69,213,942 (-)NCBI
Celera1862,907,666 - 64,001,277 (-)NCBICelera
Cytogenetic Map18q12.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Antoine-Bertrand J, etal., Mol Biol Cell. 2011 Oct;22(19):3734-46. doi: 10.1091/mbc.E10-11-0917. Epub 2011 Aug 17.
2. Bai G, etal., Cell. 2011 Jan 7;144(1):106-18. doi: 10.1016/j.cell.2010.11.053.
3. Bouchard JF, etal., J Neurochem. 2008 Oct;107(2):398-417. Epub 2008 Sep 18.
4. Cho KR, etal., Genomics 1994 Feb;19(3):525-31.
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. Herincs Z, etal., J Cell Sci. 2005 Apr 15;118(Pt 8):1687-92.
8. Keino-Masu K, etal., Cell 1996 Oct 18;87(2):175-85.
9. Lin L, etal., Mol Cell Neurosci. 2005 Mar;28(3):547-55.
10. Ly A, etal., Cell. 2008 Jun 27;133(7):1241-54. doi: 10.1016/j.cell.2008.05.030.
11. Ma W, etal., Structure. 2010 Nov 10;18(11):1502-11. doi: 10.1016/j.str.2010.08.011.
12. Manitt C, etal., J Neurosci Res. 2006 Dec;84(8):1808-20.
13. MGD data from the GO Consortium
14. Miyake S, etal., Cancer Res 1994 Jun 1;54(11):3007-10.
15. Moon C, etal., J Neuroimmunol. 2006 Mar;172(1-2):66-72. Epub 2005 Dec 6.
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. OMIM Disease Annotation Pipeline
18. Pipeline to import KEGG annotations from KEGG into RGD
19. RGD automated data pipeline
20. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. RGD automated import pipeline for gene-chemical interactions
22. Shekarabi M, etal., J Neurosci. 2005 Mar 23;25(12):3132-41.
23. Tanaka S, etal., Hiroshima Daigaku Shigaku Zasshi 1975;8(2):168-75.
24. Tang X, etal., Nat Cell Biol. 2008 Jun;10(6):698-706. doi: 10.1038/ncb1732. Epub 2008 May 11.
25. Taniguchi Y, etal., J Biol Chem 2003 Aug 15;278(33):30425-8. Epub 2003 Jul 2.
26. Tcherkezian J, etal., Cell. 2010 May 14;141(4):632-44. doi: 10.1016/j.cell.2010.04.008. Epub 2010 Apr 29.
27. Tsuchiya A, etal., Brain Res. 2007 Jul 23;1159:1-7. Epub 2007 Jan 20.
28. Wei Z, etal., Proc Natl Acad Sci U S A. 2011 Mar 1;108(9):3572-7. doi: 10.1073/pnas.1016567108. Epub 2011 Feb 14.
29. Yetnikoff L, etal., Neuroscience. 2007 Dec 19;150(4):764-73. Epub 2007 Oct 10.
Additional References at PubMed
PMID:2294591   PMID:9126737   PMID:9331350   PMID:15044543   PMID:15494733   PMID:15730872   PMID:16267219   PMID:17898206   PMID:18479186   PMID:18616430   PMID:18653556   PMID:19362703  
PMID:19616629   PMID:19858080   PMID:20628609   PMID:21085126   PMID:21656855   PMID:21820492   PMID:23230270   PMID:23291093   PMID:30626732   PMID:33771901  


Genomics

Comparative Map Data
Dcc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21864,868,987 - 65,972,783 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1864,873,898 - 65,972,740 (-)Ensembl
Rnor_6.01866,518,213 - 67,629,801 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1866,523,120 - 67,224,566 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01865,688,901 - 66,793,126 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41868,026,795 - 69,140,741 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11868,099,995 - 69,213,942 (-)NCBI
Celera1862,907,666 - 64,001,277 (-)NCBICelera
Cytogenetic Map18q12.1NCBI
DCC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1852,340,197 - 53,535,903 (+)EnsemblGRCh38hg38GRCh38
GRCh381852,340,172 - 53,535,899 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371849,866,567 - 51,062,269 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361848,120,569 - 49,311,780 (+)NCBINCBI36hg18NCBI36
Build 341848,121,155 - 49,311,286NCBI
Celera1846,722,385 - 47,918,339 (+)NCBI
Cytogenetic Map18q21.2NCBI
HuRef1846,722,887 - 47,917,133 (+)NCBIHuRef
CHM1_11849,861,521 - 51,057,237 (+)NCBICHM1_1
Dcc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391871,386,703 - 72,484,299 (-)NCBIGRCm39mm39
GRCm39 Ensembl1871,386,705 - 72,484,140 (-)Ensembl
GRCm381871,253,613 - 72,351,228 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1871,253,634 - 72,351,069 (-)EnsemblGRCm38mm10GRCm38
MGSCv371871,413,286 - 72,510,723 (-)NCBIGRCm37mm9NCBIm37
MGSCv361871,384,359 - 72,475,947 (-)NCBImm8
Celera1872,536,536 - 73,631,393 (-)NCBICelera
Cytogenetic Map18E2NCBI
cM Map1845.24NCBI
Dcc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540237,123,795 - 38,218,472 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540237,123,112 - 38,218,876 (+)NCBIChiLan1.0ChiLan1.0
DCC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11849,060,454 - 50,255,116 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1849,268,812 - 50,255,155 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01845,717,924 - 46,913,998 (+)NCBIMhudiblu_PPA_v0panPan3
DCC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,788,833 - 22,494,849 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,793,328 - 22,494,967 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha122,784,245 - 23,871,211 (-)NCBI
ROS_Cfam_1.0121,687,171 - 22,774,992 (-)NCBI
UMICH_Zoey_3.1121,742,849 - 22,829,651 (-)NCBI
UNSW_CanFamBas_1.0121,635,199 - 22,721,696 (-)NCBI
UU_Cfam_GSD_1.0121,906,717 - 22,993,897 (-)NCBI
Dcc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494434,878,291 - 35,930,900 (-)NCBI
SpeTri2.0NW_00493649710,122,078 - 11,169,900 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DCC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1102,080,200 - 103,087,249 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11101,518,629 - 103,087,021 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21112,538,098 - 112,878,669 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DCC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11827,437,224 - 28,623,717 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1827,442,489 - 28,212,697 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660501,432,122 - 2,644,336 (-)NCBIVero_WHO_p1.0
Dcc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477815,979,350 - 17,225,263 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D18Mgh3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,844,950 - 65,845,095 (+)MAPPERmRatBN7.2
Rnor_6.01867,502,122 - 67,502,266NCBIRnor6.0
Rnor_5.01866,665,061 - 66,665,205UniSTSRnor5.0
RGSC_v3.41869,013,303 - 69,013,448RGDRGSC3.4
RGSC_v3.41869,013,304 - 69,013,448UniSTSRGSC3.4
RGSC_v3.11869,086,504 - 69,086,649RGD
Celera1863,873,881 - 63,874,025UniSTS
RH 3.4 Map18685.3UniSTS
RH 3.4 Map18685.3RGD
RH 2.0 Map18224.7RGD
SHRSP x BN Map1838.7499RGD
FHH x ACI Map1848.5199RGD
Cytogenetic Map18q12.2UniSTS
D18Rat54  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,437,891 - 65,438,136 (+)MAPPERmRatBN7.2
Rnor_6.01867,088,773 - 67,089,017NCBIRnor6.0
Rnor_5.01866,259,249 - 66,259,493UniSTSRnor5.0
RGSC_v3.41868,596,398 - 68,596,642UniSTSRGSC3.4
RGSC_v3.41868,596,212 - 68,596,646RGDRGSC3.4
RGSC_v3.11868,669,599 - 68,669,843RGD
Celera1863,467,490 - 63,467,734UniSTS
RH 3.4 Map18686.6RGD
RH 3.4 Map18686.6UniSTS
RH 2.0 Map18217.9RGD
SHRSP x BN Map1838.7499RGD
FHH x ACI Map1848.6RGD
Cytogenetic Map18q12.2UniSTS
D18Rat85  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,146,129 - 65,146,325 (+)MAPPERmRatBN7.2
Rnor_6.01866,795,906 - 66,796,101NCBIRnor6.0
Rnor_5.01865,966,665 - 65,966,860UniSTSRnor5.0
RGSC_v3.41868,301,989 - 68,302,185RGDRGSC3.4
RGSC_v3.41868,301,990 - 68,302,185UniSTSRGSC3.4
RGSC_v3.11868,375,191 - 68,375,386RGD
RH 3.4 Map18669.7RGD
RH 3.4 Map18669.7UniSTS
RH 2.0 Map18220.8RGD
SHRSP x BN Map1838.7499RGD
Cytogenetic Map18q12.2UniSTS
D18Rat86  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,489,355 - 65,489,518 (+)MAPPERmRatBN7.2
Rnor_6.01867,137,630 - 67,137,792NCBIRnor6.0
Rnor_5.01866,308,106 - 66,308,268UniSTSRnor5.0
RGSC_v3.41868,648,157 - 68,648,320RGDRGSC3.4
RGSC_v3.41868,648,158 - 68,648,320UniSTSRGSC3.4
RGSC_v3.11868,721,359 - 68,721,521RGD
Celera1863,518,956 - 63,519,118UniSTS
RH 3.4 Map18668.4RGD
RH 3.4 Map18668.4UniSTS
RH 2.0 Map18218.2RGD
SHRSP x BN Map1838.7499RGD
Cytogenetic Map18q12.2UniSTS
D18Rat124  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21864,907,448 - 64,907,655 (+)MAPPERmRatBN7.2
Rnor_6.01866,556,675 - 66,556,881NCBIRnor6.0
Rnor_5.01865,727,363 - 65,727,569UniSTSRnor5.0
RGSC_v3.41868,060,349 - 68,060,556RGDRGSC3.4
RGSC_v3.41868,060,350 - 68,060,556UniSTSRGSC3.4
RGSC_v3.11868,133,550 - 68,133,757RGD
Celera1862,941,217 - 62,941,423UniSTS
SHRSP x BN Map1838.7499RGD
SHRSP x BN Map1838.7499UniSTS
Cytogenetic Map18q12.2UniSTS
D18Chm58  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,185,912 - 65,186,096 (+)MAPPERmRatBN7.2
Rnor_6.01866,835,772 - 66,835,959NCBIRnor6.0
Rnor_5.01866,006,531 - 66,006,718UniSTSRnor5.0
RGSC_v3.41868,344,039 - 68,344,226UniSTSRGSC3.4
Celera1863,216,536 - 63,216,723UniSTS
Cytogenetic Map18q12.2UniSTS
D18Chm59  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,970,331 - 65,970,689 (+)MAPPERmRatBN7.2
mRatBN7.21865,970,534 - 65,970,689 (+)MAPPERmRatBN7.2
Rnor_6.01867,627,706 - 67,628,100NCBIRnor6.0
Rnor_6.01867,627,948 - 67,628,100NCBIRnor6.0
Rnor_5.01866,790,887 - 66,791,039UniSTSRnor5.0
Rnor_5.01866,790,645 - 66,791,039UniSTSRnor5.0
RGSC_v3.41869,138,888 - 69,139,040UniSTSRGSC3.4
Celera1863,999,424 - 63,999,576UniSTS
Cytogenetic Map18q12.2UniSTS
D18Got123  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,489,317 - 65,489,445 (+)MAPPERmRatBN7.2
Rnor_6.01867,137,592 - 67,137,719NCBIRnor6.0
Rnor_5.01866,308,068 - 66,308,195UniSTSRnor5.0
RGSC_v3.41868,648,120 - 68,648,247UniSTSRGSC3.4
Celera1863,518,918 - 63,519,045UniSTS
Cytogenetic Map18q12.2UniSTS
D18Got129  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,951,714 - 65,951,978 (+)MAPPERmRatBN7.2
Rnor_6.01867,608,886 - 67,609,149NCBIRnor6.0
Rnor_5.01866,771,825 - 66,772,088UniSTSRnor5.0
RGSC_v3.41869,120,068 - 69,120,331UniSTSRGSC3.4
Celera1863,980,604 - 63,980,867UniSTS
Cytogenetic Map18q12.2UniSTS
BE105775  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,945,491 - 65,945,643 (+)MAPPERmRatBN7.2
Rnor_6.01867,602,663 - 67,602,814NCBIRnor6.0
Rnor_5.01866,765,602 - 66,765,753UniSTSRnor5.0
RGSC_v3.41869,113,845 - 69,113,996UniSTSRGSC3.4
Celera1863,974,381 - 63,974,532UniSTS
RH 3.4 Map18669.2UniSTS
Cytogenetic Map18q12.2UniSTS
BE106373  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,379,460 - 65,379,610 (+)MAPPERmRatBN7.2
Rnor_6.01867,030,002 - 67,030,151NCBIRnor6.0
Rnor_5.01866,200,478 - 66,200,627UniSTSRnor5.0
RGSC_v3.41868,537,952 - 68,538,101UniSTSRGSC3.4
Celera1863,409,056 - 63,409,205UniSTS
RH 3.4 Map18686.8UniSTS
Cytogenetic Map18q12.2UniSTS
BE107748  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21864,970,751 - 64,970,930 (+)MAPPERmRatBN7.2
Rnor_6.01866,620,001 - 66,620,179NCBIRnor6.0
Rnor_5.01865,790,689 - 65,790,867UniSTSRnor5.0
RGSC_v3.41868,124,234 - 68,124,412UniSTSRGSC3.4
Celera1863,004,034 - 63,004,212UniSTS
RH 3.4 Map18669.8UniSTS
Cytogenetic Map18q12.2UniSTS
AU048327  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera1863,250,217 - 63,250,356UniSTS
Cytogenetic Map18q12.2UniSTS
BE118490  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,418,871 - 65,419,024 (+)MAPPERmRatBN7.2
Rnor_6.01867,069,413 - 67,069,565NCBIRnor6.0
Rnor_5.01866,239,889 - 66,240,041UniSTSRnor5.0
RGSC_v3.41868,577,379 - 68,577,531UniSTSRGSC3.4
Celera1863,448,456 - 63,448,608UniSTS
RH 3.4 Map18668.4UniSTS
Cytogenetic Map18q12.2UniSTS
AW520939  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,920,113 - 65,920,268 (+)MAPPERmRatBN7.2
Rnor_6.01867,577,286 - 67,577,440NCBIRnor6.0
Rnor_5.01866,740,225 - 66,740,379UniSTSRnor5.0
RGSC_v3.41869,088,465 - 69,088,619UniSTSRGSC3.4
Celera1863,949,003 - 63,949,157UniSTS
RH 3.4 Map18670.3UniSTS
Cytogenetic Map18q12.2UniSTS
AU048796  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,707,722 - 65,707,889 (+)MAPPERmRatBN7.2
Rnor_6.01867,362,348 - 67,362,514NCBIRnor6.0
Rnor_5.01866,526,004 - 66,526,170UniSTSRnor5.0
RGSC_v3.41868,875,770 - 68,875,936UniSTSRGSC3.4
Celera1863,737,244 - 63,737,413UniSTS
Cytogenetic Map18q12.2UniSTS
GDB:201899  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21865,296,271 - 65,296,426 (+)MAPPERmRatBN7.2
Rnor_6.01866,946,261 - 66,946,415NCBIRnor6.0
Rnor_5.01866,117,020 - 66,117,174UniSTSRnor5.0
RGSC_v3.41868,454,925 - 68,455,079UniSTSRGSC3.4
Celera1863,326,809 - 63,326,963UniSTS
Cytogenetic Map18q12.2UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181927890183218561Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182137289383213037Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182479697779788953Rat
2325839Bp348Blood pressure QTL 3480.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182557098570570985Rat
2293704Bss35Bone structure and strength QTL 354.590.0002femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)182896485373964853Rat
2300157Bmd66Bone mineral density QTL 6613.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)182896485373964853Rat
2300177Bmd65Bone mineral density QTL 6519.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)182896485373964853Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)182979296574792965Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)182979296574792965Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)182979296574792965Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182979296574792965Rat
738005Anxrr11Anxiety related response QTL 113.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)183003981375039813Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183135940870263868Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183135940883218561Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183139332077209694Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183587072380870723Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183819245583192455Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184143297183828827Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184334502283828827Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184664067583828827Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184664067583828827Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184664067583828827Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)184852004483828827Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)184852004483828827Rat
7411719Strs5Sensitivity to stroke QTL 59.4cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)184999995865845095Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185146473383218561Rat
1331752Bw27Body weight QTL 272.963body mass (VT:0001259)body weight (CMO:0000012)185229287565845095Rat
1359020Ppulsi2Prepulse inhibition QTL 22.71prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)185229287573997283Rat
631509Sald2Serum aldosterone level QTL 22.9blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)185253976369140759Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)185253976376104388Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)185253976376104388Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)185253976376104388Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)185253976376104388Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)185253976376104388Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)185253976376104388Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185253976376104388Rat
1300125Rf26Renal function QTL 263.2urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)185253986365844950Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)185470976983828827Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)185917211583828827Rat
2312600Bp341Blood pressure QTL 3410.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)185933040970263868Rat
2301969Bp324Blood pressure QTL 3244.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)185971241776477814Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)185971241776477814Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185971241776477814Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)185971241776477814Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)185971241776477814Rat
1331770Bp234Blood pressure QTL 2343.807arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185979647871893566Rat
6903353Bp353Blood pressure QTL 3532.8arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)185979647883828827Rat
6903356Bp354Blood pressure QTL 3544.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185979647883828827Rat
61384Bp48Blood pressure QTL 4819.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186062231177209844Rat
631675Iddm15Insulin dependent diabetes mellitus QTL 15urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)186062231177209844Rat


Genetic Models
This gene Dcc is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:49
Count of miRNA genes:39
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000064947
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
Medium 62
Low 4 4 4 12 12 26
Below cutoff 1 16 12 7 4 7 6 6 9 13 3 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000064947   ⟹   ENSRNOP00000063072
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1864,873,898 - 65,573,781 (-)Ensembl
Rnor_6.0 Ensembl1866,523,120 - 67,224,566 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101171   ⟹   ENSRNOP00000096451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1864,873,898 - 65,972,740 (-)Ensembl
RefSeq Acc Id: NM_012841   ⟹   NP_036973
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21864,873,894 - 65,972,390 (-)NCBI
Rnor_6.01866,523,120 - 67,629,801 (-)NCBI
Rnor_5.01865,688,901 - 66,793,126 (-)NCBI
RGSC_v3.41868,026,795 - 69,140,741 (-)RGD
Celera1862,907,666 - 64,001,277 (-)RGD
Sequence:
RefSeq Acc Id: XM_008772087   ⟹   XP_008770309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21864,868,987 - 65,972,783 (-)NCBI
Rnor_6.01866,518,213 - 67,629,589 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039096588   ⟹   XP_038952516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21864,868,987 - 65,790,814 (-)NCBI
RefSeq Acc Id: XM_039096589   ⟹   XP_038952517
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21864,868,987 - 65,972,783 (-)NCBI
RefSeq Acc Id: XM_039096590   ⟹   XP_038952518
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21864,868,987 - 65,195,862 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036973   ⟸   NM_012841
- Peptide Label: precursor
- UniProtKB: Q63155 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008770309   ⟸   XM_008772087
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000063072   ⟸   ENSRNOT00000064947
RefSeq Acc Id: XP_038952517   ⟸   XM_039096589
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952516   ⟸   XM_039096588
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038952518   ⟸   XM_039096590
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000096451   ⟸   ENSRNOT00000101171
Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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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/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2492 AgrOrtholog
Ensembl Genes ENSRNOG00000033099 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063072 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064947 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DCC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neogenin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25311 UniProtKB/Swiss-Prot
NCBI Gene 25311 ENTREZGENE
PANTHER PTHR44170:SF8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam fn3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neogenin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Dcc PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Transposagen Dcc Transposagen
UniProt DCC_RAT UniProtKB/Swiss-Prot
  F1LRN5_RAT UniProtKB/TrEMBL
  Q63153_RAT UniProtKB/TrEMBL
  Q63154_RAT UniProtKB/TrEMBL
  Q63155 ENTREZGENE
  Q78EE6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Dcc  Deleted in colcorectal cancer (rat homolog)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains transmembrane domains 729062
gene_expression expressed on spinal commissural axons 729062
gene_function receptor that mediates the guidance effects of netrin-1 on commissural axons 729062
gene_function cell surface receptor that mediates intracellular signalling pathways 1298870
gene_function gamma-secretase-dependent transcription coactivator 1298870
gene_physical_interaction binds to netrin-1 729062
gene_regulation subjected to transmembranous proteolysis processing by presenilin-gamma-secretase, resulting in membrane-bound DCC-intracellular domains (DCC-ICDs) 1298870