Kcna1 (potassium voltage-gated channel subfamily A member 1) - Rat Genome Database

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Gene: Kcna1 (potassium voltage-gated channel subfamily A member 1) Rattus norvegicus
Analyze
Symbol: Kcna1
Name: potassium voltage-gated channel subfamily A member 1
RGD ID: 2949
Description: Exhibits delayed rectifier potassium channel activity; voltage-gated ion channel activity involved in regulation of postsynaptic membrane potential; and voltage-gated ion channel activity involved in regulation of presynaptic membrane potential. Involved in several processes, including neuronal action potential; neuronal signal transduction; and positive regulation of voltage-gated potassium channel activity. Localizes to several cellular components, including axon; glutamatergic synapse; and integral component of plasma membrane. Used to study episodic ataxia type 1 and visual epilepsy. Human ortholog(s) of this gene implicated in episodic ataxia type 1. Orthologous to human KCNA1 (potassium voltage-gated channel subfamily A member 1); INTERACTS WITH 17alpha-ethynylestradiol; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: IA; Kcna; Kcpvd; Kv1.1; potassium (K+) channel protein voltage dependent; potassium channel, voltage gated shaker related subfamily A, member 1; potassium voltage gated channel shaker related subfamily member 1; Potassium voltage gated channel, shaker related subfamily, member 1; potassium voltage-gated channel, shaker-related subfamily, member 1; RBKI; RCK1; voltage-gated potassium channel subunit Kv1.1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Kcna1Adms  
Genetic Models: F344-Kcna1Adms/Kyo
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24159,464,223 - 159,472,905 (-)NCBI
Rnor_6.0 Ensembl4159,190,804 - 159,192,526 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04159,190,781 - 159,192,526 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04226,188,851 - 226,190,596 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44163,011,777 - 163,013,522 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14163,254,845 - 163,259,290 (-)NCBI
Celera4148,186,141 - 148,187,886 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Deal KK, etal., J Neurosci. 1994 Mar;14(3 Pt 2):1666-76.
2. Dodson PD, etal., J Neurosci. 2002 Aug 15;22(16):6953-61.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. GOA data from the GO Consortium
5. Ishida S, etal., Brain Res. 2012 Jan 30;1435:154-66. doi: 10.1016/j.brainres.2011.11.023. Epub 2011 Nov 13.
6. Ishikawa T, etal., J Neurosci. 2003 Nov 12;23(32):10445-53.
7. Ivanina T, etal., Biochemistry. 1994 Jul 26;33(29):8786-92.
8. Kanda VA, etal., Biophys J. 2011 Sep 21;101(6):1354-63. doi: 10.1016/j.bpj.2011.08.015. Epub 2011 Sep 20.
9. Kim E, etal., Nature. 1995 Nov 2;378(6552):85-8.
10. Manganas LN and Trimmer JS, J Biol Chem. 2000 Sep 22;275(38):29685-93.
11. MGD data from the GO Consortium
12. Oiso S, etal., J Neurochem. 2009 Apr;109(1):158-67. Epub 2009 Jan 23.
13. OMIM Disease Annotation Pipeline
14. Rasband MN and Trimmer JS, J Comp Neurol. 2001 Jan 1;429(1):166-76.
15. RGD automated data pipeline
16. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. RGD automated import pipeline for gene-chemical interactions
18. Rhodes KJ, etal., J Neurosci. 1997 Nov 1;17(21):8246-58.
19. Schulte U, etal., Neuron. 2006 Mar 2;49(5):697-706.
20. Speake T, etal., Am J Physiol Cell Physiol 2004 Mar;286(3):C611-20. Epub 2003 Nov 5.
21. Stuhmer W, etal., EMBO J 1989 Nov;8(11):3235-44.
22. Yang Q, etal., Neuroscience. 2007 Oct 26;149(2):315-27. Epub 2007 Aug 8.
Additional References at PubMed
PMID:2539643   PMID:3191911   PMID:8046438   PMID:8361541   PMID:9736643   PMID:10585425   PMID:10884227   PMID:12879861   PMID:12907802   PMID:12944270   PMID:12963709   PMID:15361858  
PMID:15949244   PMID:16122713   PMID:16306173   PMID:16331678   PMID:16624997   PMID:17023663   PMID:17136396   PMID:17315199   PMID:17520476   PMID:17855588   PMID:18053989   PMID:18222921  
PMID:18466331   PMID:18760366   PMID:18806782   PMID:19074135   PMID:19118603   PMID:19307729   PMID:19472219   PMID:19696788   PMID:19715983   PMID:19779067   PMID:19912772   PMID:20805574  
PMID:20974108   PMID:21233214   PMID:21371023   PMID:21483673   PMID:21903165   PMID:21966978   PMID:22871113   PMID:23413915   PMID:23473320   PMID:23725331   PMID:23836929   PMID:23903368  
PMID:25270294   PMID:25931508   PMID:26348848   PMID:29476059  


Genomics

Candidate Gene Status
Kcna1 is a candidate Gene for QTL Bp116
Comparative Map Data
Kcna1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24159,464,223 - 159,472,905 (-)NCBI
Rnor_6.0 Ensembl4159,190,804 - 159,192,526 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04159,190,781 - 159,192,526 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04226,188,851 - 226,190,596 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44163,011,777 - 163,013,522 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14163,254,845 - 163,259,290 (-)NCBI
Celera4148,186,141 - 148,187,886 (-)NCBICelera
Cytogenetic Map4q42NCBI
KCNA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl124,909,905 - 4,918,256 (+)EnsemblGRCh38hg38GRCh38
GRCh38124,909,905 - 4,918,256 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37125,019,071 - 5,027,422 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36124,889,334 - 4,897,683 (+)NCBINCBI36hg18NCBI36
Build 34124,890,805 - 4,892,293NCBI
Celera126,640,916 - 6,649,264 (+)NCBI
Cytogenetic Map12p13.32NCBI
HuRef124,875,853 - 4,884,200 (+)NCBIHuRef
CHM1_1125,018,738 - 5,027,087 (+)NCBICHM1_1
Kcna1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396126,613,426 - 126,622,764 (-)NCBIGRCm39mm39
GRCm39 Ensembl6126,617,360 - 126,623,347 (-)Ensembl
GRCm386126,636,463 - 126,645,801 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6126,640,397 - 126,646,384 (-)EnsemblGRCm38mm10GRCm38
MGSCv376126,586,481 - 126,595,819 (-)NCBIGRCm37mm9NCBIm37
MGSCv366126,606,016 - 126,610,415 (-)NCBImm8
Celera6128,306,063 - 128,315,400 (-)NCBICelera
Cytogenetic Map6F3NCBI
cM Map661.57NCBI
Kcna1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554132,703,030 - 2,711,612 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554132,703,030 - 2,711,612 (+)NCBIChiLan1.0ChiLan1.0
KCNA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1124,949,464 - 4,957,811 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl124,950,938 - 4,952,425 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0125,027,333 - 5,037,136 (+)NCBIMhudiblu_PPA_v0panPan3
KCNA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12739,928,347 - 39,936,753 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2739,933,825 - 39,935,312 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha276,745,890 - 6,747,377 (+)NCBI
ROS_Cfam_1.02740,289,956 - 40,291,443 (-)NCBI
UMICH_Zoey_3.12740,179,028 - 40,180,515 (-)NCBI
UNSW_CanFamBas_1.02740,203,981 - 40,205,468 (-)NCBI
UU_Cfam_GSD_1.0276,156,901 - 6,158,388 (+)NCBI
LOC101959799
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721327,488,417 - 27,489,932 (+)NCBI
SpeTri2.0NW_004937109142,711 - 144,257 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl565,561,962 - 65,565,116 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1565,556,837 - 65,565,880 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2567,763,338 - 67,770,194 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KCNA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1114,956,824 - 4,963,732 (+)NCBI
ChlSab1.1 Ensembl114,956,856 - 4,958,343 (+)Ensembl
Kcna1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248601,915,108 - 1,923,071 (+)NCBI

Position Markers
PMC20739P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.44163,013,325 - 163,014,269UniSTSRGSC3.4
Cytogenetic Map4q42UniSTS
RH138013  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.04159,192,816 - 159,193,289NCBIRnor6.0
Rnor_5.04226,190,676 - 226,191,041NCBIRnor5.0
RGSC_v3.44163,014,427 - 163,015,044UniSTSRGSC3.4
Celera4148,188,044 - 148,188,662UniSTS
RH 3.4 Map4999.2UniSTS
Cytogenetic Map4q42UniSTS
PMC20739P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24159,470,926 - 159,471,130 (+)MAPPER
Rnor_6.04159,192,329 - 159,192,532NCBIRnor6.0
Rnor_5.04226,190,399 - 226,190,602UniSTSRnor5.0
RGSC_v3.44163,013,325 - 163,013,528UniSTSRGSC3.4
Celera4148,187,689 - 148,187,892UniSTS
Cytogenetic Map4q42UniSTS
UniSTS:143652  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24159,470,836 - 159,470,951 (+)MAPPER
Rnor_6.04159,192,239 - 159,192,353NCBIRnor6.0
Rnor_5.04226,190,309 - 226,190,423UniSTSRnor5.0
RGSC_v3.44163,013,235 - 163,013,349UniSTSRGSC3.4
Celera4148,187,599 - 148,187,713UniSTS
Cytogenetic Map4q42UniSTS
GDB:435453  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24159,469,970 - 159,470,718 (+)MAPPER
Rnor_6.04159,191,373 - 159,192,120NCBIRnor6.0
Rnor_5.04226,189,443 - 226,190,190UniSTSRnor5.0
RGSC_v3.44163,012,369 - 163,013,116UniSTSRGSC3.4
Celera4148,186,733 - 148,187,480UniSTS
Cytogenetic Map4q42UniSTS
PMC20739P3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24159,470,941 - 159,471,130 (+)MAPPER
Rnor_6.04159,192,344 - 159,192,532NCBIRnor6.0
Rnor_5.04226,190,414 - 226,190,602UniSTSRnor5.0
RGSC_v3.44163,013,340 - 163,013,528UniSTSRGSC3.4
Celera4148,187,704 - 148,187,892UniSTS
Cytogenetic Map4q42UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)423850384169318094Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)484475257178931073Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486438317168047091Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494893247168046938Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4105971071168047091Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4108876717169215811Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4117926139162926139Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4123111827168111827Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123478354168478354Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4123587009168587009Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4124442168169442168Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4125884464168047091Rat
1358364Sradr4Stress Responsive Adrenal Weight QTL 44.92adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)4128602727173602727Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131532269168047091Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131532269168047091Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4131834282176834282Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4131864442176864442Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132455408168047091Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (VE) (CMO:0000132)4134917642179917642Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4136351734174694858Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4136351734174694858Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4136351734180689124Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4136908430182878540Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)4137171018182171018Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4145373934176509907Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4145547014184226339Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4145547014184226339Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4145547014184226339Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4145547014184226339Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4145547014184226339Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146086918168047091Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4146497452184226339Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4146942075168998263Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155386197184226339Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4156855449184226339Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157423126184226339Rat


Genetic Models
This gene Kcna1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:74
Count of miRNA genes:63
Interacting mature miRNAs:66
Transcripts:ENSRNOT00000026731
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 25
Low 13 2 8 2 7 7 43 11 2 7
Below cutoff 10 13 8 7 8 1 3 6 12 25 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026731   ⟹   ENSRNOP00000026731
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4159,190,804 - 159,192,526 (-)Ensembl
RefSeq Acc Id: NM_173095   ⟹   NP_775118
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24159,469,379 - 159,471,124 (-)NCBI
Rnor_6.04159,190,781 - 159,192,526 (-)NCBI
Rnor_5.04226,188,851 - 226,190,596 (-)NCBI
RGSC_v3.44163,011,777 - 163,013,522 (-)RGD
Celera4148,186,141 - 148,187,886 (-)RGD
Sequence:
RefSeq Acc Id: XM_039107020   ⟹   XP_038962948
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24159,464,223 - 159,472,905 (-)NCBI
Protein Sequences
Protein RefSeqs NP_775118 (Get FASTA)   NCBI Sequence Viewer  
  XP_038962948 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41982 (Get FASTA)   NCBI Sequence Viewer  
  EDM01833 (Get FASTA)   NCBI Sequence Viewer  
  EDM01834 (Get FASTA)   NCBI Sequence Viewer  
  P10499 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_775118   ⟸   NM_173095
- UniProtKB: P10499 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026731   ⟸   ENSRNOT00000026731
RefSeq Acc Id: XP_038962948   ⟸   XM_039107020
- Peptide Label: isoform X1

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)
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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:2949 AgrOrtholog
Ensembl Genes ENSRNOG00000019750 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000026731 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000026731 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.120.350 UniProtKB/Swiss-Prot
InterPro BTB/POZ_dom UniProtKB/Swiss-Prot
  Ion_trans_dom UniProtKB/Swiss-Prot
  K_chnl_volt-dep_Kv UniProtKB/Swiss-Prot
  K_chnl_volt-dep_Kv1 UniProtKB/Swiss-Prot
  K_chnl_volt-dep_Kv1.1 UniProtKB/Swiss-Prot
  SKP1/BTB/POZ_sf UniProtKB/Swiss-Prot
  T1-type_BTB UniProtKB/Swiss-Prot
  VG_K_chnl UniProtKB/Swiss-Prot
  Volt_channel_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:24520 UniProtKB/Swiss-Prot
NCBI Gene 24520 ENTREZGENE
PANTHER PTHR11537 UniProtKB/Swiss-Prot
Pfam BTB_2 UniProtKB/Swiss-Prot
  Ion_trans UniProtKB/Swiss-Prot
PhenoGen Kcna1 PhenoGen
PRINTS KV11CHANNEL UniProtKB/Swiss-Prot
  KVCHANNEL UniProtKB/Swiss-Prot
  SHAKERCHANEL UniProtKB/Swiss-Prot
SMART BTB UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54695 UniProtKB/Swiss-Prot
UniProt KCNA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Kcna1  potassium voltage-gated channel subfamily A member 1  Kcna1  potassium channel, voltage gated shaker related subfamily A, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-02-26 Kcna1  potassium channel, voltage gated shaker related subfamily A, member 1  Kcna1  potassium voltage-gated channel, shaker-related subfamily, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Kcna1  potassium voltage-gated channel, shaker-related subfamily, member 1  Kcna  Potassium voltage gated channel, shaker related subfamily, member 1  Symbol and Name updated 625702 APPROVED
2001-10-23 Kcna  Potassium voltage gated channel, shaker related subfamily, member 1      Name updated 68913 APPROVED
2001-10-23 Kcna  Potassium voltage gated channel, shaker related subfamily, member 1channel protein, voltage dependent      Name updated to reflect Human and Mouse nomenclature 68913 APPROVED
2001-10-23 Kcna  Potassium (K+) channel protein, voltage dependent      Name withdrawn 68913 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the apical membrane of the epithelial cells 1300201
gene_expression expressed in choroid plexus epithelial cells 1300201