Cit (citron rho-interacting serine/threonine kinase) - Rat Genome Database

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Gene: Cit (citron rho-interacting serine/threonine kinase) Rattus norvegicus
Analyze
Symbol: Cit
Name: citron rho-interacting serine/threonine kinase
RGD ID: 70878
Description: Predicted to enable several functions, including PDZ domain binding activity; scaffold protein binding activity; and transcription coactivator binding activity. Involved in several processes, including G2/M transition of mitotic cell cycle; liver development; and regulation of actin polymerization or depolymerization. Located in several cellular components, including Golgi cisterna; cleavage furrow; and midbody. Used to study epilepsy; microcephaly; and visual epilepsy. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly 17. Orthologous to human CIT (citron rho-interacting serine/threonine kinase); INTERACTS WITH acetamide; ammonium chloride; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: citron; citron (rho-interacting, serine/threonine kinase 21); citron kinase; citron Rho-interacting kinase; citron-K; citron-K kinase; CRIK; LOC288698; postsynaptic density protein (citron); rho-interacting, serine/threonine-protein kinase 21
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: CitfhJjlo  
Genetic Models: WI-CitfhJjlo/Rrrc
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21240,603,073 - 40,764,846 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1240,605,563 - 40,763,860 (-)Ensembl
Rnor_6.01246,334,669 - 46,494,152 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1246,334,665 - 46,494,174 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01248,136,329 - 48,295,119 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41241,858,134 - 42,019,601 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11241,721,050 - 41,801,648 (-)NCBI
Celera1242,234,665 - 42,392,523 (-)NCBICelera
Cytogenetic Map12q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:9697773   PMID:9792683   PMID:12432070   PMID:12764032   PMID:12781320   PMID:16202622   PMID:16236794   PMID:16431929   PMID:17148954   PMID:17474715   PMID:17488780   PMID:18309323  
PMID:19790105   PMID:19946888   PMID:20525772   PMID:20971191   PMID:25593024   PMID:27453578  


Genomics

Comparative Map Data
Cit
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21240,603,073 - 40,764,846 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1240,605,563 - 40,763,860 (-)Ensembl
Rnor_6.01246,334,669 - 46,494,152 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1246,334,665 - 46,494,174 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01248,136,329 - 48,295,119 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41241,858,134 - 42,019,601 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11241,721,050 - 41,801,648 (-)NCBI
Celera1242,234,665 - 42,392,523 (-)NCBICelera
Cytogenetic Map12q16NCBI
CIT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl12119,685,791 - 119,877,320 (-)EnsemblGRCh38hg38GRCh38
GRCh3812119,685,791 - 119,877,320 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3712120,123,596 - 120,315,124 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3612118,607,981 - 118,799,475 (-)NCBINCBI36hg18NCBI36
Build 3412118,586,317 - 118,777,812NCBI
Celera12119,756,651 - 119,948,207 (-)NCBI
Cytogenetic Map12q24.23NCBI
HuRef12117,131,727 - 117,325,161 (-)NCBIHuRef
CHM1_112120,091,103 - 120,282,752 (-)NCBICHM1_1
Cit
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395115,983,284 - 116,147,012 (+)NCBIGRCm39mm39
GRCm39 Ensembl5115,983,337 - 116,147,006 (+)Ensembl
GRCm385115,845,224 - 116,008,953 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5115,845,278 - 116,008,947 (+)EnsemblGRCm38mm10GRCm38
MGSCv375116,295,665 - 116,456,352 (+)NCBIGRCm37mm9NCBIm37
MGSCv365116,106,655 - 116,267,342 (+)NCBImm8
Celera5112,946,512 - 113,107,010 (+)NCBICelera
Cytogenetic Map5FNCBI
Cit
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545511,704,964 - 11,872,419 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545511,705,015 - 11,871,762 (+)NCBIChiLan1.0ChiLan1.0
CIT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.112120,641,747 - 120,832,511 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12120,641,747 - 120,832,511 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v012117,264,627 - 117,456,069 (-)NCBIMhudiblu_PPA_v0panPan3
CIT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12615,721,500 - 15,885,133 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2615,723,690 - 15,884,343 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2615,726,097 - 15,891,228 (-)NCBI
ROS_Cfam_1.02615,988,829 - 16,154,093 (-)NCBI
UMICH_Zoey_3.12615,958,883 - 16,123,644 (-)NCBI
UNSW_CanFamBas_1.02616,027,058 - 16,192,182 (-)NCBI
UU_Cfam_GSD_1.02616,068,008 - 16,233,213 (-)NCBI
Cit
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118146,492,141 - 146,649,860 (+)NCBI
SpeTri2.0NW_004936668991,043 - 1,146,578 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CIT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1433,009,867 - 33,196,286 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11433,009,828 - 33,195,985 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21434,987,299 - 35,141,860 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CIT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111115,026,809 - 115,220,558 (-)NCBI
ChlSab1.1 Ensembl11115,025,045 - 115,219,356 (-)Ensembl
Vero_WHO_p1.0NW_023666037129,885,578 - 130,080,578 (+)NCBI
Cit
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474713,749,126 - 13,918,222 (+)NCBI

Position Markers
D12Wox25  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21240,684,742 - 40,684,904 (+)MAPPERmRatBN7.2
Rnor_6.01246,413,872 - 46,414,033NCBIRnor6.0
Rnor_5.01248,215,043 - 48,215,204UniSTSRnor5.0
RGSC_v3.41241,937,698 - 41,937,859UniSTSRGSC3.4
Celera1242,313,353 - 42,313,514UniSTS
Cytogenetic Map12q16UniSTS
RH131289  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21240,684,880 - 40,685,083 (+)MAPPERmRatBN7.2
Rnor_6.01246,414,010 - 46,414,212NCBIRnor6.0
Rnor_5.01248,215,181 - 48,215,383UniSTSRnor5.0
RGSC_v3.41241,937,836 - 41,938,038UniSTSRGSC3.4
Celera1242,313,491 - 42,313,693UniSTS
Cytogenetic Map12q16UniSTS
G29083  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21240,641,796 - 40,641,911 (+)MAPPERmRatBN7.2
Rnor_6.01246,370,930 - 46,371,044NCBIRnor6.0
Rnor_5.01248,172,101 - 48,172,215UniSTSRnor5.0
RGSC_v3.41241,894,755 - 41,894,869UniSTSRGSC3.4
Celera1242,270,857 - 42,270,971UniSTS
Cytogenetic Map12q16UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961087042828880Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)122806443345899022Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)122806443346669029Rat
1300162Bp188Blood pressure QTL 1883.19arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123210317445899022Rat


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

Predicted Target Of
Summary Value
Count of predictions:173
Count of miRNA genes:113
Interacting mature miRNAs:124
Transcripts:ENSRNOT00000041281, ENSRNOT00000057036
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

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 24 30 16 9 16 74 16 32
Low 3 10 26 24 10 24 8 11 19 9 11 8
Below cutoff 9 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001029911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249470 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769269 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089818 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089820 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089825 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089826 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089832 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF039218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF070065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473973 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000041281   ⟹   ENSRNOP00000043901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1240,605,563 - 40,763,860 (-)Ensembl
Rnor_6.0 Ensembl1246,334,688 - 46,414,434 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000057036   ⟹   ENSRNOP00000053869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1240,605,563 - 40,763,860 (-)Ensembl
Rnor_6.0 Ensembl1246,335,160 - 46,493,203 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086716   ⟹   ENSRNOP00000069808
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1240,605,563 - 40,763,860 (-)Ensembl
Rnor_6.0 Ensembl1246,334,665 - 46,494,174 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118447   ⟹   ENSRNOP00000077575
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1240,605,563 - 40,763,860 (-)Ensembl
RefSeq Acc Id: NM_001029911   ⟹   NP_001025082
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,605,563 - 40,763,860 (-)NCBI
Rnor_6.01246,335,160 - 46,493,203 (-)NCBI
Rnor_5.01248,136,329 - 48,295,119 (-)NCBI
RGSC_v3.41241,858,134 - 42,019,601 (-)RGD
Celera1242,234,665 - 42,392,523 (-)RGD
Sequence:
RefSeq Acc Id: XM_006249469   ⟹   XP_006249531
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
Rnor_6.01246,334,669 - 46,494,152 (-)NCBI
Rnor_5.01248,136,329 - 48,295,119 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249471   ⟹   XP_006249533
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
Rnor_6.01246,334,669 - 46,494,152 (-)NCBI
Rnor_5.01248,136,329 - 48,295,119 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249472   ⟹   XP_006249534
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
Rnor_6.01246,334,669 - 46,494,152 (-)NCBI
Rnor_5.01248,136,329 - 48,295,119 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249477   ⟹   XP_006249539
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,703,215 (-)NCBI
Rnor_6.01246,334,669 - 46,414,500 (-)NCBI
Rnor_5.01248,136,329 - 48,295,119 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008769269   ⟹   XP_008767491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
Rnor_6.01246,334,669 - 46,494,152 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039089818   ⟹   XP_038945746
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089819   ⟹   XP_038945747
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,805 (-)NCBI
RefSeq Acc Id: XM_039089820   ⟹   XP_038945748
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089821   ⟹   XP_038945749
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089822   ⟹   XP_038945750
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089823   ⟹   XP_038945751
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089824   ⟹   XP_038945752
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089825   ⟹   XP_038945753
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089826   ⟹   XP_038945754
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089827   ⟹   XP_038945755
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,764,754 (-)NCBI
RefSeq Acc Id: XM_039089828   ⟹   XP_038945756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,703,213 (-)NCBI
RefSeq Acc Id: XM_039089829   ⟹   XP_038945757
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,702,541 (-)NCBI
RefSeq Acc Id: XM_039089830   ⟹   XP_038945758
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,723,296 (-)NCBI
RefSeq Acc Id: XM_039089831   ⟹   XP_038945759
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,684,840 (-)NCBI
RefSeq Acc Id: XM_039089832   ⟹   XP_038945760
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,684,774 (-)NCBI
RefSeq Acc Id: XM_039089834   ⟹   XP_038945762
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,624,947 - 40,764,846 (-)NCBI
RefSeq Acc Id: XM_039089835   ⟹   XP_038945763
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,603,073 - 40,667,924 (-)NCBI
RefSeq Acc Id: XM_039089836   ⟹   XP_038945764
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21240,633,778 - 40,764,846 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001025082 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249531 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249533 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249534 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249539 (Get FASTA)   NCBI Sequence Viewer  
  XP_008767491 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945746 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945747 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945748 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945749 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945750 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945751 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945752 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945753 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945754 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945755 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945756 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945757 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945758 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945759 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945760 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945762 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945763 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945764 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC25483 (Get FASTA)   NCBI Sequence Viewer  
  AAC27932 (Get FASTA)   NCBI Sequence Viewer  
  E9PSL7 (Get FASTA)   NCBI Sequence Viewer  
  EDM13856 (Get FASTA)   NCBI Sequence Viewer  
  EDM13857 (Get FASTA)   NCBI Sequence Viewer  
  EDM13858 (Get FASTA)   NCBI Sequence Viewer  
  EDM13859 (Get FASTA)   NCBI Sequence Viewer  
  EDM13860 (Get FASTA)   NCBI Sequence Viewer  
  EDM13861 (Get FASTA)   NCBI Sequence Viewer  
  EDM13862 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001025082   ⟸   NM_001029911
- UniProtKB: E9PSL7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249534   ⟸   XM_006249472
- Peptide Label: isoform X9
- UniProtKB: E9PSL7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249533   ⟸   XM_006249471
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006249531   ⟸   XM_006249469
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006249539   ⟸   XM_006249477
- Peptide Label: isoform X17
- Sequence:
RefSeq Acc Id: XP_008767491   ⟸   XM_008769269
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000043901   ⟸   ENSRNOT00000041281
RefSeq Acc Id: ENSRNOP00000053869   ⟸   ENSRNOT00000057036
RefSeq Acc Id: ENSRNOP00000069808   ⟸   ENSRNOT00000086716
RefSeq Acc Id: XP_038945754   ⟸   XM_039089826
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038945753   ⟸   XM_039089825
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038945752   ⟸   XM_039089824
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038945751   ⟸   XM_039089823
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038945749   ⟸   XM_039089821
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038945750   ⟸   XM_039089822
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038945748   ⟸   XM_039089820
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038945746   ⟸   XM_039089818
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945747   ⟸   XM_039089819
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945755   ⟸   XM_039089827
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038945758   ⟸   XM_039089830
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038945756   ⟸   XM_039089828
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038945757   ⟸   XM_039089829
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038945759   ⟸   XM_039089831
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038945760   ⟸   XM_039089832
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038945763   ⟸   XM_039089835
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038945762   ⟸   XM_039089834
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038945764   ⟸   XM_039089836
- Peptide Label: isoform X20
RefSeq Acc Id: ENSRNOP00000077575   ⟸   ENSRNOT00000118447
Protein Domains
AGC-kinase C-terminal   CNH   PH   Protein kinase

Transcriptome

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

Promoters
RGD ID:13698691
Promoter ID:EPDNEW_R9208
Type:multiple initiation site
Name:Cit_1
Description:citron rho-interacting serine/threonine kinase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01246,494,132 - 46,494,192EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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
ACI/EurMcwi (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)
ACI/EurMcwi (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
ACI/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
ACI/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
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BN/SsN (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
BUF/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
BXH2/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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
F344/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
F344/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
F344/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
F344/NRrrc (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
F344/Stm (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
FHH/EurMcwi (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
FXLE16/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
FXLE18/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
GH/OmrMcwi (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)
GK/FarMcwi (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
GK/Ox (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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (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
LE/Stm (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
LEW/Crl (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
LEW/Crl (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
LEW/NCrlBR (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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/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
LEXF1A/Stm (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
LEXF1C/Stm (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
LEXF2B/Stm (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
LEXF3/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
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)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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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:70878 AgrOrtholog
Ensembl Genes ENSRNOG00000001143 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000043901 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000053869 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000069808 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000041281 UniProtKB/Swiss-Prot
  ENSRNOT00000057036 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000086716 UniProtKB/Swiss-Prot
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot
InterPro AGC-kinase_C UniProtKB/Swiss-Prot
  Citron_Rho-interacting_kinase UniProtKB/Swiss-Prot
  CNH_dom UniProtKB/Swiss-Prot
  CRIK_dom UniProtKB/Swiss-Prot
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  PE/DAG-bd UniProtKB/Swiss-Prot
  PH-like_dom_sf UniProtKB/Swiss-Prot
  PH_domain UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:83620 UniProtKB/Swiss-Prot
NCBI Gene 83620 ENTREZGENE
PANTHER PTHR22988:SF26 UniProtKB/Swiss-Prot
Pfam CNH UniProtKB/Swiss-Prot
  PF00169 UniProtKB/Swiss-Prot
  Pkinase UniProtKB/Swiss-Prot
PhenoGen Cit PhenoGen
PIRSF Citron_Rho-interacting_kinase UniProtKB/Swiss-Prot
PROSITE AGC_KINASE_CTER UniProtKB/Swiss-Prot
  CNH UniProtKB/Swiss-Prot
  PH_DOMAIN UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot
  ZF_DAG_PE_1 UniProtKB/Swiss-Prot
  ZF_DAG_PE_2 UniProtKB/Swiss-Prot
SMART CNH UniProtKB/Swiss-Prot
  S_TK_X UniProtKB/Swiss-Prot
  S_TKc UniProtKB/Swiss-Prot
  SM00109 UniProtKB/Swiss-Prot
  SM00233 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot
UniProt CTRO_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A0A0G2JWA9 UniProtKB/Swiss-Prot
  Q9QX19 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-05-01 Cit  citron rho-interacting serine/threonine kinase  Cit  citron  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-04-30 Cit  citron  Cit  citron (rho-interacting, serine/threonine kinase 21)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-04-17 Cit  citron (rho-interacting, serine/threonine kinase 21)  LOC288698  Citron-K kinase  Data Merged 737654 PROVISIONAL
2012-01-09 Cit  citron (rho-interacting, serine/threonine kinase 21)  Cit  citron  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-11-05 Cit  citron  Cit  citron (rho-interacting, serine/threonine kinase 21)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Cit  citron (rho-interacting, serine/threonine kinase 21)  Cit  citron  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-07-09 Cit  citron      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to interphase nuclei and the cytoplasm 632407
gene_cellular_localization present in interphase nuclei dispersing into cytoplasm at prophase 628497
gene_expression expression starts at late S and/or early G2 phase; high expression in embryonic liver and gradually decreases after birth 628497
gene_function serine/thronine kinase 628497
gene_function phosphorylates regultory myosin light chain (RMLC) 628497
gene_mutations_overexpression loss of protein results in increase of G2 tetraploid nuclei in one week old rat 628497
gene_process cell cycle dependent protein regulating G2/M transition in hepatocytes 628497
gene_process participates in cytokinesis control as a downstream target of Rho-GTPase and may function in regulation of G2/M transition 628497