Kcnip4 (potassium voltage-gated channel interacting protein 4) - Rat Genome Database
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Gene: Kcnip4 (potassium voltage-gated channel interacting protein 4) Rattus norvegicus
Analyze
Symbol: Kcnip4
Name: potassium voltage-gated channel interacting protein 4
RGD ID: 708539
Description: Exhibits potassium channel regulator activity. Involved in protein localization to plasma membrane and regulation of potassium ion transmembrane transport. Localizes to several cellular components, including dendrite; neuronal cell body; and voltage-gated potassium channel complex. Orthologous to human KCNIP4 (potassium voltage-gated channel interacting protein 4); PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; decabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: A-type potassium channel modulatory protein 4; Kchip4; Kv channel interacting protein 4; Kv channel-interacting protein 4; potassium channel interacting protein 4; potassium channel-interacting protein 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Kcnip4Tn(sb-T2/Bart3)2.225Mcwi  
Genetic Models: F344-Kcnip4Tn(sb-T2/Bart3)2.225Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21461,380,699 - 62,531,399 (+)NCBI
Rnor_6.0 Ensembl1466,598,259 - 66,749,178 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01465,549,362 - 66,749,181 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01465,635,533 - 66,780,362 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41466,284,290 - 67,452,628 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11466,286,680 - 67,455,019 (+)NCBI
Celera1460,438,842 - 61,579,354 (+)NCBICelera
Cytogenetic Map14q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:11351020   PMID:11847232   PMID:19109250   PMID:19713751   PMID:20943905   PMID:24037673   PMID:31792968  


Genomics

Comparative Map Data
Kcnip4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21461,380,699 - 62,531,399 (+)NCBI
Rnor_6.0 Ensembl1466,598,259 - 66,749,178 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01465,549,362 - 66,749,181 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01465,635,533 - 66,780,362 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41466,284,290 - 67,452,628 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11466,286,680 - 67,455,019 (+)NCBI
Celera1460,438,842 - 61,579,354 (+)NCBICelera
Cytogenetic Map14q11NCBI
KCNIP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl420,728,606 - 21,948,772 (-)EnsemblGRCh38hg38GRCh38
GRCh38420,728,520 - 21,948,772 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37420,730,229 - 21,950,395 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36420,339,337 - 21,559,472 (-)NCBINCBI36hg18NCBI36
Build 34420,407,313 - 21,626,643NCBI
Celera421,186,744 - 22,401,039 (-)NCBI
Cytogenetic Map4p15.31-p15.2NCBI
HuRef420,078,999 - 21,295,123 (-)NCBIHuRef
CHM1_1420,728,167 - 21,948,303 (-)NCBICHM1_1
Kcnip4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39548,546,845 - 49,682,464 (-)NCBIGRCm39mm39
GRCm39 Ensembl548,546,844 - 49,682,249 (-)Ensembl
GRCm38548,389,503 - 49,525,122 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl548,389,502 - 49,524,907 (-)EnsemblGRCm38mm10GRCm38
MGSCv37548,780,742 - 49,280,796 (-)NCBIGRCm37mm9NCBIm37
MGSCv36548,677,750 - 48,798,008 (-)NCBImm8
Celera545,791,893 - 46,283,161 (-)NCBICelera
Cytogenetic Map5B3NCBI
Kcnip4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554802,803,482 - 3,909,709 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554802,803,374 - 3,911,081 (+)NCBIChiLan1.0ChiLan1.0
KCNIP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1420,422,728 - 21,645,890 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl420,422,728 - 21,645,866 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0415,131,693 - 16,354,827 (-)NCBIMhudiblu_PPA_v0panPan3
KCNIP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl387,771,875 - 88,894,884 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1388,013,222 - 88,896,093 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Kcnip4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364776,967,927 - 8,024,539 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNIP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl815,211,916 - 16,346,170 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1815,211,916 - 16,346,358 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2815,470,139 - 16,695,141 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KCNIP4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12728,350,918 - 29,539,229 (+)NCBI
ChlSab1.1 Ensembl2729,420,010 - 29,541,783 (+)Ensembl
Kcnip4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475510,271,131 - 11,392,421 (+)NCBI

Position Markers
D14Rat87  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01466,574,929 - 66,575,150NCBIRnor6.0
Rnor_5.01466,605,954 - 66,606,175UniSTSRnor5.0
RGSC_v3.41467,261,866 - 67,262,088RGDRGSC3.4
RGSC_v3.41467,261,867 - 67,262,088UniSTSRGSC3.4
RGSC_v3.11467,264,257 - 67,264,479RGD
Celera1461,407,771 - 61,407,992UniSTS
SHRSP x BN Map1430.5UniSTS
SHRSP x BN Map1430.5RGD
Cytogenetic Map14q11UniSTS
D14Rat88  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01465,964,437 - 65,964,586UniSTSRnor5.0
Rnor_5.01465,509,916 - 65,510,065UniSTSRnor5.0
RGSC_v3.41466,611,911 - 66,612,061RGDRGSC3.4
RGSC_v3.41466,611,912 - 66,612,061UniSTSRGSC3.4
RGSC_v3.11466,614,302 - 66,614,452RGD
Celera1460,765,356 - 60,765,505UniSTS
SHRSP x BN Map1430.5UniSTS
SHRSP x BN Map1430.5RGD
Cytogenetic Map14q11UniSTS
D14Got108  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,681,578 - 65,681,761NCBIRnor6.0
Rnor_5.01465,767,745 - 65,767,928UniSTSRnor5.0
RGSC_v3.41466,417,132 - 66,417,315UniSTSRGSC3.4
Celera1460,571,074 - 60,571,263UniSTS
Cytogenetic Map14q11UniSTS
D14Got137  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,403,962 - 65,404,253NCBIRnor6.0
Rnor_6.01465,856,874 - 65,857,165NCBIRnor6.0
Rnor_5.01465,943,053 - 65,943,344UniSTSRnor5.0
Rnor_5.01465,488,798 - 65,489,089UniSTSRnor5.0
RGSC_v3.41466,590,794 - 66,591,085UniSTSRGSC3.4
Celera1460,744,373 - 60,744,660UniSTS
Cytogenetic Map14q11UniSTS
D14Got104  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01466,367,581 - 66,367,713NCBIRnor6.0
Rnor_5.01466,399,806 - 66,399,938UniSTSRnor5.0
RGSC_v3.41467,051,447 - 67,051,579UniSTSRGSC3.4
Celera1461,201,010 - 61,201,142UniSTS
Cytogenetic Map14q11UniSTS
RH131556  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,570,787 - 65,570,967NCBIRnor6.0
Rnor_5.01465,656,954 - 65,657,134UniSTSRnor5.0
RGSC_v3.41466,306,333 - 66,306,513UniSTSRGSC3.4
Celera1460,460,257 - 60,460,437UniSTS
RH 3.4 Map14480.58UniSTS
Cytogenetic Map14q11UniSTS
RH144553  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,392,681 - 65,392,832NCBIRnor6.0
Rnor_6.01465,845,595 - 65,845,746NCBIRnor6.0
Rnor_5.01465,931,774 - 65,931,925UniSTSRnor5.0
Rnor_5.01465,477,517 - 65,477,668UniSTSRnor5.0
RGSC_v3.41466,579,513 - 66,579,664UniSTSRGSC3.4
Celera1460,733,095 - 60,733,246UniSTS
RH 3.4 Map14458.87UniSTS
Cytogenetic Map14q11UniSTS
BE113856  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,586,235 - 65,586,433NCBIRnor6.0
Rnor_5.01465,672,402 - 65,672,600UniSTSRnor5.0
RGSC_v3.41466,321,781 - 66,321,979UniSTSRGSC3.4
Celera1460,475,725 - 60,475,923UniSTS
RH 3.4 Map14479.58UniSTS
Cytogenetic Map14q11UniSTS
BE114195  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01466,032,768 - 66,032,917NCBIRnor6.0
Rnor_5.01466,065,578 - 66,065,727UniSTSRnor5.0
RGSC_v3.41466,714,514 - 66,714,663UniSTSRGSC3.4
Celera1460,867,776 - 60,867,925UniSTS
RH 3.4 Map14455.07UniSTS
Cytogenetic Map14q11UniSTS
RH137736  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01466,171,622 - 66,171,778NCBIRnor6.0
Rnor_5.01466,204,382 - 66,204,538UniSTSRnor5.0
RGSC_v3.41466,854,594 - 66,854,750UniSTSRGSC3.4
Celera1461,006,353 - 61,006,509UniSTS
RH 3.4 Map14455.27UniSTS
Cytogenetic Map14q11UniSTS
RH138036  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01466,222,692 - 66,222,916NCBIRnor6.0
Rnor_5.01466,255,437 - 66,255,661UniSTSRnor5.0
RGSC_v3.41466,907,398 - 66,907,622UniSTSRGSC3.4
Celera1461,058,082 - 61,058,306UniSTS
RH 3.4 Map14456.97UniSTS
Cytogenetic Map14q11UniSTS
RH138347  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,569,436 - 65,569,682NCBIRnor6.0
Rnor_6.0185,612,206 - 85,612,452NCBIRnor6.0
Rnor_5.01465,655,603 - 65,655,849UniSTSRnor5.0
Rnor_5.0186,822,307 - 86,822,553UniSTSRnor5.0
RGSC_v3.41466,304,982 - 66,305,228UniSTSRGSC3.4
RGSC_v3.4125,174,427 - 25,174,673UniSTSRGSC3.4
Celera123,297,501 - 23,297,747UniSTS
Celera1460,458,906 - 60,459,152UniSTS
Cytogenetic Map14q11UniSTS
BE115263  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01465,385,997 - 65,386,156NCBIRnor6.0
Rnor_6.01465,838,914 - 65,839,073NCBIRnor6.0
Rnor_5.01465,925,093 - 65,925,252UniSTSRnor5.0
Rnor_5.01465,470,833 - 65,470,992UniSTSRnor5.0
RGSC_v3.41466,572,829 - 66,572,988UniSTSRGSC3.4
Celera1460,726,412 - 60,726,571UniSTS
RH 3.4 Map14475.3UniSTS
Cytogenetic Map14q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143316331673391571Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14975643572854397Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)144163756980841518Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)142145756566457565Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat


Genetic Models
This gene Kcnip4 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:106
Count of miRNA genes:87
Interacting mature miRNAs:92
Transcripts:ENSRNOT00000049743
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 42 12 4
Low 2 20 7 4 2 4 6 6 32 23 28 10 6
Below cutoff 1 22 38 25 13 25 2 3 7 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000049743   ⟹   ENSRNOP00000042016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1466,598,259 - 66,747,764 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079658   ⟹   ENSRNOP00000075583
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1466,631,690 - 66,749,178 (+)Ensembl
RefSeq Acc Id: NM_181365   ⟹   NP_852030
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21461,380,699 - 62,530,144 (+)NCBI
Rnor_6.01465,549,366 - 66,747,926 (+)NCBI
Rnor_5.01465,635,533 - 66,780,362 (+)NCBI
RGSC_v3.41466,284,290 - 67,452,628 (+)RGD
Celera1460,438,842 - 61,579,354 (+)RGD
Sequence:
RefSeq Acc Id: XM_017599086   ⟹   XP_017454575
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21462,291,156 - 62,531,399 (+)NCBI
Rnor_6.01466,512,739 - 66,749,181 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599087   ⟹   XP_017454576
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21462,001,895 - 62,531,399 (+)NCBI
Rnor_6.01466,224,703 - 66,749,181 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599088   ⟹   XP_017454577
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21461,617,718 - 62,531,399 (+)NCBI
Rnor_6.01465,789,433 - 66,749,181 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599089   ⟹   XP_017454578
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21461,380,758 - 62,531,399 (+)NCBI
Rnor_6.01465,549,362 - 66,749,181 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599090   ⟹   XP_017454579
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01466,512,741 - 66,749,181 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_852030   ⟸   NM_181365
- UniProtKB: Q99MG9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017454578   ⟸   XM_017599089
- Peptide Label: isoform X4
- UniProtKB: Q99MG9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017454577   ⟸   XM_017599088
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017454576   ⟸   XM_017599087
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017454575   ⟸   XM_017599086
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454579   ⟸   XM_017599090
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000075583   ⟸   ENSRNOT00000079658
RefSeq Acc Id: ENSRNOP00000042016   ⟸   ENSRNOT00000049743
Protein Domains
EF-hand

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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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:708539 AgrOrtholog
Ensembl Genes ENSRNOG00000032350 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000042016 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075583 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000049743 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000079658 UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Recoverin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:259243 UniProtKB/Swiss-Prot
NCBI Gene 259243 ENTREZGENE
PANTHER PTHR23055 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EF-hand_7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF-hand_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Kcnip4 PhenoGen
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART EFh UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Transposagen Kcnip4 Transposagen
UniProt A0A0G2KAZ2_RAT UniProtKB/TrEMBL
  G3V9C1_RAT UniProtKB/TrEMBL
  KCIP4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q99MG8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Kcnip4  Kv channel interacting protein 4    potassium channel interacting protein 4  Name updated 1299863 APPROVED
2004-09-10 Kcnip4  potassium channel interacting protein 4  Kchip4    Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference