Kcnn4 (potassium calcium-activated channel subfamily N member 4) - Rat Genome Database

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Gene: Kcnn4 (potassium calcium-activated channel subfamily N member 4) Rattus norvegicus
Analyze
Symbol: Kcnn4
Name: potassium calcium-activated channel subfamily N member 4
RGD ID: 621476
Description: Exhibits Intermediate conductance calcium-activated potassium channel activity. Involved in anion transport and potassium ion export across plasma membrane. Localizes to several cellular components, including apical plasma membrane; basolateral plasma membrane; and membrane raft. Human ortholog(s) of this gene implicated in dehydrated hereditary stomatocytosis 2. Orthologous to human KCNN4 (potassium calcium-activated channel subfamily N member 4); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: IK1; intermediate conductance calcium-activated potassium channel; intermediate conductance calcium-activated potassium channel protein 4; intermediate conductance K channel; intermediate-conductance Ca-activated K channel; KCa3.1; KCa4; MGC156636; potassium channel, calcium activated intermediate/small conductance subfamily N alpha, member 4; potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4; rKCNN4c; rSK4; SK4; SKCa 4; SKCa4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2179,956,380 - 79,974,354 (+)NCBI
Rnor_6.0 Ensembl181,230,612 - 81,245,996 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0181,227,855 - 81,245,986 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0182,490,768 - 82,508,502 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,613,736 - 79,628,887 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1179,691,846 - 79,706,998 (+)NCBI
Celera174,414,099 - 74,428,815 (+)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-diaminotoluene  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetohydrazide  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
Calcimycin  (ISO)
calciol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
chlorzoxazone  (ISO)
choline  (ISO)
cisplatin  (ISO)
clotrimazole  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
dexamethasone  (EXP)
diethylstilbestrol  (ISO)
disodium selenite  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ethanol  (ISO)
flavonoids  (EXP)
flurbiprofen  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (ISO)
hydrogen peroxide  (ISO)
indometacin  (EXP)
ionomycin  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lithium chloride  (ISO)
menadione  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
paraquat  (EXP)
pentanal  (ISO)
pirinixic acid  (ISO)
potassium atom  (ISO)
progesterone  (ISO)
propanal  (ISO)
protein kinase inhibitor  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
S-allylcysteine  (ISO)
silicon dioxide  (ISO)
sulforaphane  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
tetraethylammonium  (ISO)
thapsigargin  (ISO)
topotecan  (EXP)
TRAM-34  (ISO)
tungsten  (ISO)
Zoxazolamine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:11724775   PMID:12388098   PMID:12477932   PMID:14602578   PMID:15379997   PMID:15615695   PMID:16873365   PMID:17202491   PMID:18097031   PMID:18403729   PMID:18796614   PMID:20364152  
PMID:20445171   PMID:20501432   PMID:21345794   PMID:21463632   PMID:22168445   PMID:22322970   PMID:22414869   PMID:22555847   PMID:22646737   PMID:22815978   PMID:23053478   PMID:23212096  
PMID:23488860   PMID:23620825   PMID:23656217   PMID:24420768   PMID:24901797   PMID:25131209   PMID:25212242   PMID:25468996   PMID:25477223   PMID:26148990   PMID:26335442   PMID:26824610  
PMID:26950800   PMID:27174668   PMID:27486024   PMID:28248292   PMID:28679649   PMID:29038048   PMID:29558628   PMID:29952429   PMID:30563389   PMID:31432175   PMID:31638180   PMID:32879404  


Genomics

Comparative Map Data
Kcnn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2179,956,380 - 79,974,354 (+)NCBI
Rnor_6.0 Ensembl181,230,612 - 81,245,996 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0181,227,855 - 81,245,986 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0182,490,768 - 82,508,502 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,613,736 - 79,628,887 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1179,691,846 - 79,706,998 (+)NCBI
Celera174,414,099 - 74,428,815 (+)NCBICelera
Cytogenetic Map1q21NCBI
KCNN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1943,766,533 - 43,781,257 (-)EnsemblGRCh38hg38GRCh38
GRCh381943,766,533 - 43,782,139 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371944,270,685 - 44,285,125 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361948,962,525 - 48,977,249 (-)NCBINCBI36hg18NCBI36
Build 341948,962,524 - 48,977,249NCBI
Celera1941,074,253 - 41,088,976 (-)NCBI
Cytogenetic Map19q13.31NCBI
HuRef1940,702,891 - 40,717,615 (-)NCBIHuRef
CHM1_11944,272,786 - 44,287,492 (-)NCBICHM1_1
Kcnn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39724,069,251 - 24,084,637 (+)NCBIGRCm39mm39
GRCm39 Ensembl724,069,688 - 24,086,115 (+)Ensembl
GRCm38724,369,826 - 24,385,212 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl724,370,263 - 24,386,690 (+)EnsemblGRCm38mm10GRCm38
MGSCv37725,155,282 - 25,170,231 (+)NCBIGRCm37mm9NCBIm37
MGSCv36724,079,023 - 24,093,969 (+)NCBImm8
Celera718,994,758 - 19,009,501 (+)NCBICelera
Cytogenetic Map7A3NCBI
Kcnn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555551,490,052 - 1,509,113 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555551,493,600 - 1,509,113 (-)NCBIChiLan1.0ChiLan1.0
KCNN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11949,321,403 - 49,335,909 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1949,321,403 - 49,335,900 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01940,715,621 - 40,735,025 (-)NCBIMhudiblu_PPA_v0panPan3
KCNN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11111,391,464 - 111,407,612 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1111,391,159 - 111,407,701 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1110,871,521 - 110,887,685 (+)NCBI
ROS_Cfam_1.01111,964,804 - 111,980,983 (+)NCBI
UMICH_Zoey_3.11111,590,240 - 111,606,189 (+)NCBI
UNSW_CanFamBas_1.01111,224,067 - 111,240,036 (+)NCBI
UU_Cfam_GSD_1.01112,107,905 - 112,124,068 (+)NCBI
Kcnn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934916,593,227 - 16,605,448 (-)NCBI
SpeTri2.0NW_004936706940,585 - 952,484 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl650,580,022 - 50,593,544 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1650,580,016 - 50,593,518 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2646,440,884 - 46,454,405 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KCNN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1637,289,088 - 37,316,850 (-)NCBI
Vero_WHO_p1.0NW_02366607316,833,196 - 16,851,561 (-)NCBI
Kcnn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249071,266,348 - 1,279,258 (-)NCBI

Position Markers
D1Got82  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2179,969,446 - 79,969,559 (+)MAPPER
Rnor_6.0181,241,080 - 81,241,192NCBIRnor6.0
Rnor_5.0182,503,596 - 82,503,708UniSTSRnor5.0
RGSC_v3.4179,624,016 - 79,624,129RGDRGSC3.4
RGSC_v3.4179,624,017 - 79,624,129UniSTSRGSC3.4
RGSC_v3.1179,702,128 - 79,702,240RGD
Celera174,423,915 - 74,424,027UniSTS
RH 3.4 Map1787.0UniSTS
RH 3.4 Map1787.0RGD
RH 2.0 Map1501.1RGD
Cytogenetic Map1q21UniSTS
RH131024  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2179,973,983 - 79,974,178 (+)MAPPER
Rnor_6.0181,245,616 - 81,245,810NCBIRnor6.0
Rnor_5.0182,508,132 - 82,508,326UniSTSRnor5.0
RGSC_v3.4179,628,554 - 79,628,748UniSTSRGSC3.4
Celera174,428,451 - 74,428,645UniSTS
RH 3.4 Map1786.99UniSTS
Cytogenetic Map1q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)149147799156446783Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15385134883657083Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15385134883657083Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15052271494225616Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)16722768394201552Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)179689548124689548Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)164588516125875986Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)166113339122614963Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13537750894364229Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)179134941113593716Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14957857794578577Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149578577169852184Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157761301104391981Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17968976594909507Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134993530173445086Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)158354072161711996Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14190724986907249Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11131448983657083Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143579208126240667Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143579208126240667Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11131448983657083Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)158209327103209327Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11131448983657083Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143579208126240667Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143579208126240667Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14954732883657083Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11131448983657083Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143579208126240667Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:62
Count of miRNA genes:50
Interacting mature miRNAs:60
Transcripts:ENSRNOT00000026489
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 3 10 28 20 19 20 1
Low 33 25 18 18 7 10 58 33 33 10 7
Below cutoff 4 3 3 1 1 16 2 8 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_023021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228470 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228471 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008758978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491858 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491859 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491860 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491869 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005491870 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB292802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB292803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC127190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF149250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF156554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF190458 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ133438 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC128736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473979 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ137429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU872449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU872450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU872451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC874397 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000026489   ⟹   ENSRNOP00000026489
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl181,230,612 - 81,245,996 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077952   ⟹   ENSRNOP00000073190
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl181,230,989 - 81,245,580 (+)Ensembl
RefSeq Acc Id: NM_001270701   ⟹   NP_001257630
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,322 - 79,974,348 (+)NCBI
Rnor_6.0181,230,847 - 81,245,980 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
Celera174,414,099 - 74,428,815 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270702   ⟹   NP_001257631
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,322 - 79,974,348 (+)NCBI
Rnor_6.0181,230,847 - 81,245,980 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
Celera174,414,099 - 74,428,815 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270703   ⟹   NP_001257632
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,322 - 79,974,348 (+)NCBI
Rnor_6.0181,230,847 - 81,245,980 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
Celera174,414,099 - 74,428,815 (+)NCBI
Sequence:
RefSeq Acc Id: NM_023021   ⟹   NP_075410
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,322 - 79,974,348 (+)NCBI
Rnor_6.0181,230,847 - 81,245,980 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
RGSC_v3.4179,613,736 - 79,628,887 (+)RGD
Celera174,414,099 - 74,428,815 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006228469   ⟹   XP_006228531
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,974,354 (+)NCBI
Rnor_6.0181,231,073 - 81,245,986 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006228470   ⟹   XP_006228532
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0181,227,855 - 81,245,986 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006228471   ⟹   XP_006228533
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,958,301 - 79,974,354 (+)NCBI
Rnor_6.0181,228,590 - 81,245,986 (+)NCBI
Rnor_5.0182,490,768 - 82,508,502 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008758976   ⟹   XP_008757198
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0181,231,390 - 81,245,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008758977   ⟹   XP_008757199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0181,228,590 - 81,245,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008758978   ⟹   XP_008757200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0181,231,261 - 81,245,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589696   ⟹   XP_017445185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,974,354 (+)NCBI
Rnor_6.0181,231,073 - 81,245,986 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090011   ⟹   XP_038945939
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,958,307 - 79,974,354 (+)NCBI
RefSeq Acc Id: XM_039090032   ⟹   XP_038945960
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,968,258 (+)NCBI
RefSeq Acc Id: XR_005491858
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491859
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491860
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,958,303 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491863
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,958,300 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491864
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,956,380 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491865
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,958,300 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491866
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,956,380 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491868
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,974,354 (+)NCBI
RefSeq Acc Id: XR_005491869
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,959,485 - 79,973,182 (+)NCBI
RefSeq Acc Id: XR_005491870
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2179,958,298 - 79,974,354 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001257630 (Get FASTA)   NCBI Sequence Viewer  
  NP_001257631 (Get FASTA)   NCBI Sequence Viewer  
  NP_001257632 (Get FASTA)   NCBI Sequence Viewer  
  NP_075410 (Get FASTA)   NCBI Sequence Viewer  
  XP_006228531 (Get FASTA)   NCBI Sequence Viewer  
  XP_006228533 (Get FASTA)   NCBI Sequence Viewer  
  XP_017445185 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945939 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945960 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD38032 (Get FASTA)   NCBI Sequence Viewer  
  AAD38205 (Get FASTA)   NCBI Sequence Viewer  
  AAF05602 (Get FASTA)   NCBI Sequence Viewer  
  AAI28737 (Get FASTA)   NCBI Sequence Viewer  
  AAZ91675 (Get FASTA)   NCBI Sequence Viewer  
  ACJ61216 (Get FASTA)   NCBI Sequence Viewer  
  ACJ61217 (Get FASTA)   NCBI Sequence Viewer  
  ACJ61218 (Get FASTA)   NCBI Sequence Viewer  
  BAF95911 (Get FASTA)   NCBI Sequence Viewer  
  BAF95912 (Get FASTA)   NCBI Sequence Viewer  
  CAB40141 (Get FASTA)   NCBI Sequence Viewer  
  CBM42813 (Get FASTA)   NCBI Sequence Viewer  
  EDM08097 (Get FASTA)   NCBI Sequence Viewer  
  EDM08098 (Get FASTA)   NCBI Sequence Viewer  
  EDM08099 (Get FASTA)   NCBI Sequence Viewer  
  EDM08100 (Get FASTA)   NCBI Sequence Viewer  
  EDM08101 (Get FASTA)   NCBI Sequence Viewer  
  Q9QYW1 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_075410   ⟸   NM_023021
- Peptide Label: isoform a
- UniProtKB: A1A5N3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257630   ⟸   NM_001270701
- Peptide Label: isoform a
- UniProtKB: A1A5N3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257632   ⟸   NM_001270703
- Peptide Label: isoform c
- UniProtKB: A1A5N3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257631   ⟸   NM_001270702
- Peptide Label: isoform b
- UniProtKB: A1A5N3 (UniProtKB/TrEMBL),   C6ZGH4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006228532   ⟸   XM_006228470
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006228533   ⟸   XM_006228471
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006228531   ⟸   XM_006228469
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008757199   ⟸   XM_008758977
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008757200   ⟸   XM_008758978
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008757198   ⟸   XM_008758976
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017445185   ⟸   XM_017589696
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000073190   ⟸   ENSRNOT00000077952
RefSeq Acc Id: ENSRNOP00000026489   ⟸   ENSRNOT00000026489
RefSeq Acc Id: XP_038945939   ⟸   XM_039090011
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038945960   ⟸   XM_039090032
- Peptide Label: isoform X3
Protein Domains
CaMBD

Transcriptome

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

Promoters
RGD ID:13689792
Promoter ID:EPDNEW_R316
Type:initiation region
Name:Kcnn4_1
Description:potassium calcium-activated channel subfamily N member 4
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_6.0181,230,888 - 81,230,948EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621476 AgrOrtholog
Ensembl Genes ENSRNOG00000019440 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026489 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073190 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026489 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000077952 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8372655 IMAGE-MGC_LOAD
InterPro CaM-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CaM-bd_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  K_chnl_Ca-activ_SK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  K_chnl_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:65206 UniProtKB/TrEMBL
MGC_CLONE MGC:156636 IMAGE-MGC_LOAD
NCBI Gene 65206 ENTREZGENE
PANTHER PTHR10153 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CaMBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SK_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Kcnn4 PhenoGen
SMART CaMBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF81327 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K4V7_RAT UniProtKB/TrEMBL
  A1A5N3 ENTREZGENE, UniProtKB/TrEMBL
  C6ZGH4 ENTREZGENE, UniProtKB/TrEMBL
  KCNN4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary F1M7L2 UniProtKB/TrEMBL
  Q9R198 UniProtKB/Swiss-Prot
  Q9WVA5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Kcnn4  potassium calcium-activated channel subfamily N member 4  Kcnn4  potassium channel, calcium activated intermediate/small conductance subfamily N alpha, member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-01-26 Kcnn4  potassium channel, calcium activated intermediate/small conductance subfamily N alpha, member 4  Kcnn4  potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Kcnn4  potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4    intermediate conductance calcium-activated potassium channel  Name updated 1299863 APPROVED
2002-08-07 Kcnn4  intermediate conductance calcium-activated potassium channel      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in oocytes 633066
gene_regulation this channel is upregulated in proliferating smooth muscle cells 633066