Cacnb4 (calcium voltage-gated channel auxiliary subunit beta 4) - Rat Genome Database

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Gene: Cacnb4 (calcium voltage-gated channel auxiliary subunit beta 4) Rattus norvegicus
Analyze
Symbol: Cacnb4
Name: calcium voltage-gated channel auxiliary subunit beta 4
RGD ID: 68385
Description: Enables protein kinase binding activity and voltage-gated calcium channel activity. Involved in several processes, including calcium ion transport; negative regulation of G1/S transition of mitotic cell cycle; and positive regulation of protein localization to nucleolus. Located in nuclear speck. Is active in presynapse. Human ortholog(s) of this gene implicated in dilated cardiomyopathy; episodic ataxia; episodic ataxia type 5; and idiopathic generalized epilepsy 9. Orthologous to human CACNB4 (calcium voltage-gated channel auxiliary subunit beta 4); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; arrhythmogenic right ventricular cardiomyopathy pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CAB4; calcium channel beta 4 subunit; calcium channel voltage-dependent beta 4 subunit; calcium channel voltage-dependent subunit beta 4; calcium channel, voltage-dependent, beta 4 subunit; voltage-dependent L-type calcium channel subunit beta-4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8357,315,900 - 57,578,271 (-)NCBIGRCr8
mRatBN7.2336,906,771 - 37,169,165 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl336,910,427 - 37,168,944 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx340,292,289 - 40,542,372 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0348,877,070 - 49,127,150 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0346,661,653 - 46,912,088 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0337,950,846 - 38,211,478 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl337,955,069 - 38,090,526 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0343,050,530 - 43,312,292 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4333,934,478 - 34,072,070 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1333,830,849 - 34,089,967 (-)NCBI
Celera335,052,892 - 35,186,998 (-)NCBICelera
Cytogenetic Map3q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Voltage-gated calcium channels. Catterall WA Cold Spring Harb Perspect Biol. 2011 Aug 1;3(8):a003947. doi: 10.1101/cshperspect.a003947.
2. Coding and noncoding variation of the human calcium-channel beta4-subunit gene CACNB4 in patients with idiopathic generalized epilepsy and episodic ataxia. Escayg A, etal., Am J Hum Genet 2000 May;66(5):1531-9. Epub 2000 Apr 4.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Use of a purified and functional recombinant calcium-channel beta4 subunit in surface-plasmon resonance studies. Geib S, etal., Biochem J 2002 May 15;364(Pt 1):285-92.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Differential regulated interactions of calcium/calmodulin-dependent protein kinase II with isoforms of voltage-gated calcium channel beta subunits. Grueter CE, etal., Biochemistry. 2008 Feb 12;47(6):1760-7. Epub 2008 Jan 19.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. The ß4subunit of the voltage-gated calcium channel (Cacnb4) regulates the rate of cell proliferation in Chinese Hamster Ovary cells. Rima M, etal., Int J Biochem Cell Biol. 2017 Aug;89:57-70. doi: 10.1016/j.biocel.2017.05.032. Epub 2017 Jun 3.
15. The neuronal beta 4 subunit increases the unitary conductance of L-type voltage-gated calcium channels in PC12 cells. Schjott JM, etal., J Biol Chem 2003 Sep 5;278(36):33936-42. Epub 2003 Jun 23.
16. Cacnb4 directly couples electrical activity to gene expression, a process defective in juvenile epilepsy. Tadmouri A, etal., EMBO J. 2012 Sep 12;31(18):3730-44. doi: 10.1038/emboj.2012.226. Epub 2012 Aug 14.
17. Synaptic localization and presynaptic function of calcium channel beta 4-subunits in cultured hippocampal neurons. Wittemann S, etal., J Biol Chem. 2000 Dec 1;275(48):37807-14. doi: 10.1074/jbc.M004653200.
18. A Genome-Wide Association Study of Idiopathic Dilated Cardiomyopathy in African Americans. Xu H, etal., J Pers Med. 2018 Feb 26;8(1). pii: jpm8010011. doi: 10.3390/jpm8010011.
Additional References at PubMed
PMID:1321503   PMID:5037658   PMID:7261997   PMID:7472490   PMID:7562514   PMID:7595494   PMID:8388308   PMID:9293489   PMID:9705268   PMID:10322048   PMID:10328888   PMID:10407181  
PMID:11880487   PMID:12151514   PMID:12223573   PMID:16525042   PMID:16636205   PMID:17028169   PMID:17320843   PMID:19755851   PMID:19755859   PMID:20439489   PMID:26142343   PMID:30538175  


Genomics

Comparative Map Data
Cacnb4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8357,315,900 - 57,578,271 (-)NCBIGRCr8
mRatBN7.2336,906,771 - 37,169,165 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl336,910,427 - 37,168,944 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx340,292,289 - 40,542,372 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0348,877,070 - 49,127,150 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0346,661,653 - 46,912,088 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0337,950,846 - 38,211,478 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl337,955,069 - 38,090,526 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0343,050,530 - 43,312,292 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4333,934,478 - 34,072,070 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1333,830,849 - 34,089,967 (-)NCBI
Celera335,052,892 - 35,186,998 (-)NCBICelera
Cytogenetic Map3q12NCBI
CACNB4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382151,832,771 - 152,099,167 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2151,832,771 - 152,099,167 (-)EnsemblGRCh38hg38GRCh38
GRCh372152,689,285 - 152,955,681 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362152,402,382 - 152,663,790 (-)NCBINCBI36Build 36hg18NCBI36
Build 342152,519,650 - 152,655,962NCBI
Celera2146,303,966 - 146,570,260 (-)NCBICelera
Cytogenetic Map2q23.3NCBI
HuRef2144,575,492 - 144,841,767 (-)NCBIHuRef
CHM1_12152,694,863 - 152,961,451 (-)NCBICHM1_1
T2T-CHM13v2.02152,284,205 - 152,568,400 (-)NCBIT2T-CHM13v2.0
Cacnb4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39252,318,332 - 52,566,816 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl252,318,337 - 52,566,843 (-)EnsemblGRCm39 Ensembl
GRCm38252,428,320 - 52,676,609 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl252,428,320 - 52,676,831 (-)EnsemblGRCm38mm10GRCm38
MGSCv37252,283,840 - 52,532,101 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36252,250,329 - 52,498,591 (-)NCBIMGSCv36mm8
Celera254,158,343 - 54,407,154 (-)NCBICelera
Cytogenetic Map2C1.1NCBI
cM Map229.98NCBI
Cacnb4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544017,371,321 - 17,497,616 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544017,364,996 - 17,497,446 (-)NCBIChiLan1.0ChiLan1.0
CACNB4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21354,515,897 - 54,784,064 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B54,530,877 - 54,798,475 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B39,137,777 - 39,399,007 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B156,373,888 - 156,639,471 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B156,379,469 - 156,639,328 (-)Ensemblpanpan1.1panPan2
CACNB4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11952,987,170 - 53,116,410 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1952,993,618 - 53,116,140 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1952,993,618 - 53,116,140 (-)NCBICanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2628,450,546 - 28,671,051 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01954,498,188 - 54,718,287 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1954,503,946 - 54,718,498 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11953,213,170 - 53,434,776 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01953,283,518 - 53,505,200 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01954,747,989 - 54,969,199 (-)NCBIUU_Cfam_GSD_1.0
Cacnb4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303115,871,570 - 116,122,930 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646925,494,883 - 25,740,223 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646925,494,820 - 25,745,783 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CACNB4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15186,434 - 459,856 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115402,801 - 455,691 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Pig Cytomap3q14-q21NCBI
CACNB4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11037,240,749 - 37,518,174 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1037,246,991 - 37,388,059 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040162,034,798 - 162,305,942 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cacnb4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248664,973,207 - 5,281,746 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248664,973,087 - 5,287,477 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cacnb4
1575 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:625
Count of miRNA genes:273
Interacting mature miRNAs:354
Transcripts:ENSRNOT00000059430
Prediction methods:Microtar, Miranda, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)31077870450302886Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)31695470861954708Rat
731172Bp151Blood pressure QTL 1510.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31831145447233430Rat
12879849Bw180Body weight QTL 1800.037body mass (VT:0001259)body weight (CMO:0000012)31831145447233430Rat
12879850Cm91Cardiac mass QTL 910.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)31831145447233430Rat
12879851Cm92Cardiac mass QTL 920.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)31831145447233430Rat
12879852Cm93Cardiac mass QTL 930.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)31831145447233430Rat
12879853Am5Aortic mass QTL 50.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)31831145447233430Rat
12879854Kidm63Kidney mass QTL 630.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)31831145447233430Rat
10450804Scl70Serum cholesterol level QTL 704.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
10450794Scl69Serum cholesterol level QTL 696.30.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
1298073Cm13Cardiac mass QTL 132.5heart mass (VT:0007028)heart wet weight (CMO:0000069)32501391138192233Rat
631832Sach1Saccharin preference QTL 12.70.02consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)32749462144188411Rat
2313049Bss72Bone structure and strength QTL 722.60.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)32749462150302886Rat
2313076Bss74Bone structure and strength QTL 7420.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)32749462150302886Rat
2313079Bss73Bone structure and strength QTL 731.5tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)32749462150302886Rat
2313093Bmd77Bone mineral density QTL 772.20.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)32749462150302886Rat
2313101Bmd76Bone mineral density QTL 763.60.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)32749462150302886Rat
2302055Pia30Pristane induced arthritis QTL 303.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)32793691972936919Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)32824968773249687Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)32824968773249687Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)32824968773249687Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)32824968773249687Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32824968773249687Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)32846857173468571Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)32846857173468571Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)33068464275684642Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)33068464275684642Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
11565451Bw177Body weight QTL 1770.002body mass (VT:0001259)body weight (CMO:0000012)33142640370668733Rat
11565452Kidm57Kidney mass QTL 570.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)33142640370668733Rat
12879866Cm94Cardiac mass QTL 940.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)33142640370668733Rat
12879867Cm95Cardiac mass QTL 950.047heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)33142640370668733Rat
12879868Am6Aortic mass QTL 60.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)33142640370668733Rat
2301400Cm68Cardiac mass QTL 680.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)33142640370668733Rat
1300169Bp177Blood pressure QTL 1772.96arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)33370334761017857Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33370334778196190Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat

Markers in Region
RH131012  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2336,981,953 - 36,982,166 (+)MAPPERmRatBN7.2
Rnor_6.0338,025,808 - 38,026,020NCBIRnor6.0
Rnor_5.0343,125,919 - 43,126,131UniSTSRnor5.0
RGSC_v3.4334,005,783 - 34,005,995UniSTSRGSC3.4
Celera335,121,566 - 35,121,778UniSTS
RH 3.4 Map3444.8UniSTS
Cytogenetic Map3q12UniSTS
BF391063  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2336,911,953 - 36,912,114 (+)MAPPERmRatBN7.2
Rnor_6.0337,956,025 - 37,956,185NCBIRnor6.0
Rnor_5.0343,055,709 - 43,055,869UniSTSRnor5.0
RGSC_v3.4333,935,434 - 33,935,594UniSTSRGSC3.4
Celera335,053,848 - 35,054,008UniSTS
RH 3.4 Map3446.1UniSTS
Cytogenetic Map3q12UniSTS


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 58 8 1
Low 12 21 8 14 8 7 7 16 27 40 11 7
Below cutoff 3 28 36 33 5 33 1 3 1

Sequence


RefSeq Acc Id: ENSRNOT00000059430   ⟹   ENSRNOP00000056186
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl336,910,998 - 36,956,813 (-)Ensembl
Rnor_6.0 Ensembl337,955,069 - 38,090,526 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095267   ⟹   ENSRNOP00000097122
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl336,910,998 - 37,168,748 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101829   ⟹   ENSRNOP00000078900
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl336,910,427 - 37,168,748 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104638   ⟹   ENSRNOP00000089186
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl336,910,998 - 37,050,404 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107851   ⟹   ENSRNOP00000097125
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl336,910,998 - 37,168,944 (-)Ensembl
RefSeq Acc Id: NM_001105733   ⟹   NP_001099203
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,456,088 (-)NCBI
mRatBN7.2336,906,774 - 37,046,981 (-)NCBI
Rnor_6.0337,955,069 - 38,090,535 (-)NCBI
Rnor_5.0343,050,530 - 43,312,292 (-)NCBI
RGSC_v3.4333,934,478 - 34,072,070 (-)RGD
Celera335,052,892 - 35,186,998 (-)RGD
Sequence:
RefSeq Acc Id: NM_001399143   ⟹   NP_001386072
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,578,271 (-)NCBI
mRatBN7.2336,906,774 - 37,169,165 (-)NCBI
RefSeq Acc Id: XM_006234173   ⟹   XP_006234235
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,454,165 (-)NCBI
mRatBN7.2336,906,771 - 37,056,119 (-)NCBI
Rnor_6.0337,950,846 - 38,092,383 (-)NCBI
Rnor_5.0343,050,530 - 43,312,292 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592000   ⟹   XP_017447489
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,577,912 (-)NCBI
mRatBN7.2336,906,771 - 37,168,768 (-)NCBI
Rnor_6.0337,950,846 - 38,210,994 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039105754   ⟹   XP_038961682
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,362,763 (-)NCBI
mRatBN7.2336,906,771 - 36,953,642 (-)NCBI
RefSeq Acc Id: XM_063284430   ⟹   XP_063140500
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,362,720 (-)NCBI
RefSeq Acc Id: XM_063284431   ⟹   XP_063140501
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8357,315,900 - 57,353,629 (-)NCBI
RefSeq Acc Id: NP_001099203   ⟸   NM_001105733
- Peptide Label: isoform 2
- UniProtKB: A0A8L2QRB5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234235   ⟸   XM_006234173
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A7M3 (UniProtKB/TrEMBL),   A0A8L2QRB5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447489   ⟸   XM_017592000
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ARA9 (UniProtKB/TrEMBL),   A0A8L2QRB5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000056186   ⟸   ENSRNOT00000059430
RefSeq Acc Id: XP_038961682   ⟸   XM_039105754
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000078900   ⟸   ENSRNOT00000101829
RefSeq Acc Id: ENSRNOP00000097125   ⟸   ENSRNOT00000107851
RefSeq Acc Id: ENSRNOP00000089186   ⟸   ENSRNOT00000104638
RefSeq Acc Id: ENSRNOP00000097122   ⟸   ENSRNOT00000095267
RefSeq Acc Id: NP_001386072   ⟸   NM_001399143
- Peptide Label: isoform 1
- UniProtKB: D4A055 (UniProtKB/Swiss-Prot),   A6JF27 (UniProtKB/TrEMBL),   A0A8L2QRB5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063140500   ⟸   XM_063284430
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063140501   ⟸   XM_063284431
- Peptide Label: isoform X4
Protein Domains
SH3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A055-F1-model_v2 AlphaFold D4A055 1-519 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68385 AgrOrtholog
BioCyc Gene G2FUF-49727 BioCyc
Ensembl Genes ENSRNOG00000007666 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055001505 UniProtKB/Swiss-Prot
  ENSRNOG00060031882 UniProtKB/Swiss-Prot
  ENSRNOG00065008424 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000059430 ENTREZGENE
  ENSRNOT00000059430.3 UniProtKB/TrEMBL
  ENSRNOT00000095267.1 UniProtKB/TrEMBL
  ENSRNOT00000101829.1 UniProtKB/TrEMBL
  ENSRNOT00000104638.1 UniProtKB/TrEMBL
  ENSRNOT00000107851 ENTREZGENE
  ENSRNOT00000107851.1 UniProtKB/Swiss-Prot
  ENSRNOT00055002437 UniProtKB/Swiss-Prot
  ENSRNOT00060055284 UniProtKB/Swiss-Prot
  ENSRNOT00065013349 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 Domains UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CAB1-4_N_A-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GK/Ca_channel_bsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VDCC_L_bsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:58942 UniProtKB/Swiss-Prot
NCBI Gene 58942 ENTREZGENE
PANTHER VOLTAGE-DEPENDENT CALCIUM CHANNEL BETA SUBUNIT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VOLTAGE-DEPENDENT L-TYPE CALCIUM CHANNEL SUBUNIT BETA-4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Guanylate_kin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VGCC_beta4Aa_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cacnb4 PhenoGen
PRINTS LCACHANNELB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000007666 RatGTEx
  ENSRNOG00055001505 RatGTEx
  ENSRNOG00060031882 RatGTEx
  ENSRNOG00065008424 RatGTEx
SMART GuKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZLY8_RAT UniProtKB/TrEMBL
  A0A8I6A7M3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ARA9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QRB5 ENTREZGENE, UniProtKB/TrEMBL
  A6JF27 ENTREZGENE, UniProtKB/TrEMBL
  CACB4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Cacnb4  calcium voltage-gated channel auxiliary subunit beta 4  Cacnb4  calcium channel, voltage-dependent, beta 4 subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Cacnb4  calcium channel beta 4 subunit       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference