Calm2-ps2 (calmodulin 2, pseudogene 2) - Rat Genome Database

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Gene: Calm2-ps2 (calmodulin 2, pseudogene 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Calm2-ps2 (Ensembl: Calm1)
Name: calmodulin 2, pseudogene 2 (Ensembl:calmodulin 1)
RGD ID: 1597679
Description:
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: Calm-ps2; calmodulin pseudogene 2; LOC686404; similar to calmodulin 1
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Related Functional Gene: Calm2  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81564,519,537 - 64,520,655 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1564,519,554 - 64,520,657 (-)EnsemblGRCr8
mRatBN7.21558,110,600 - 58,111,718 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1558,110,595 - 58,111,720 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1562,251,243 - 62,252,361 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01563,374,349 - 63,375,469 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01560,199,588 - 60,200,708 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01565,506,866 - 65,507,984 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01569,146,646 - 69,147,756 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1557,663,844 - 57,664,962 (-)NCBICelera
Cytogenetic Map15q12NCBI
JBrowse:




References

References - curated
# Reference Title Reference Citation
1. 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.

Genomics

Variants

.
Variants in Calm2-ps2
20 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)155559608991365858Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)152788577486257085Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)155559608995018120Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)155284790873690657Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat

Markers in Region
PMC18246P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21558,111,449 - 58,111,691 (+)MAPPERmRatBN7.2
Rnor_6.01565,507,716 - 65,507,957NCBIRnor6.0
Rnor_5.01569,147,488 - 69,147,729UniSTSRnor5.0
RGSC_v3.41564,162,483 - 64,162,724UniSTSRGSC3.4
Celera1557,664,694 - 57,664,935UniSTS
Cytogenetic Map6q11-q12UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NG_007875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

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:1597679 AgrOrtholog
BioCyc Gene G2FUF-12960 BioCyc
Ensembl Genes ENSRNOG00000030871 Ensembl, ENTREZGENE
NCBI Gene 686404 ENTREZGENE
PhenoGen Calm2-ps2 PhenoGen
RatGTEx ENSRNOG00000030871 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-24 Calm2-ps2  calmodulin 2, pseudogene 2  Calm-ps2  calmodulin pseudogene 2  Name and Symbol changed 629549 APPROVED
2008-09-05 Calm-ps2  calmodulin pseudogene 2  LOC686404  similar to calmodulin 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC686404  similar to calmodulin 1      Symbol and Name status set to provisional 70820 PROVISIONAL