Cdr1os (cerebellar degeneration related antigen 1, opposite strand) - Rat Genome Database

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Gene: Cdr1os (cerebellar degeneration related antigen 1, opposite strand) Mus musculus
Analyze
Symbol: Cdr1os
Name: cerebellar degeneration related antigen 1, opposite strand
RGD ID: 2314274
MGI Page MGI
Description: Is expressed in several structures, including adipose tissue; alimentary system; central nervous system; hemolymphoid system gland; and trigeminal nerve.
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: C230004F18Rik; Cdr; Cdr1as; RIKEN cDNA C230004F18 gene
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X60,159,984 - 60,247,391 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX60,159,984 - 60,247,391 (+)EnsemblGRCm39 Ensembl
GRCm38X61,116,378 - 61,139,460 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX61,116,378 - 61,203,785 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 EnsemblX61,116,378 - 61,292,484 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X58,369,553 - 58,392,635 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X44,212,221 - 44,271,899 (+)NCBIMGSCv36mm8
MGSCv36X57,377,063 - 57,436,656 (+)NCBIMGSCv36mm8
CeleraX47,552,228 - 47,575,470 (+)NCBICelera
Cytogenetic MapXA6NCBI
cM MapX34.19NCBI
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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:16141072   PMID:16141073   PMID:21267068   PMID:23446348   PMID:28798046   PMID:29236709  
PMID:29887379   PMID:33240875  


Genomics

Variants

.
Variants in Cdr1os
1888 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:394
Count of miRNA genes:272
Interacting mature miRNAs:288
Transcripts:ENSMUST00000096426, ENSMUST00000125930, ENSMUST00000137153, ENSMUST00000140023, ENSMUST00000144853
Prediction methods:Miranda, Pita, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse
13208567Bmiq12_mbody mass index QTL 12 (mouse)X3526365377043606Mouse
1301009Pbwg7_mpostnatal body weight growth 7 (mouse)Not determinedX3911371473113814Mouse
4141565Pbwg21_mpostnatal body weight growth 21 (mouse)Not determinedX3911371473113814Mouse
1300794Spha2_msperm head anomaly 2 (mouse)Not determinedX3992149886260137Mouse
4142200Rtwq1_mreduced testis weight QTL 1 (mouse)Not determined4147706075477203Mouse
1301278Bdln1_mbody length 1 (mouse)Not determinedX4170210675702218Mouse
1300702Fcsa4_mfemoral cross-sectional area 4 (mouse)Not determinedX4602744480027567Mouse
4141630Gct6_mgranulosa cell tumorigenesis 6 (mouse)Not determined47179121129764756Mouse
1301351Obq6_mobesity QTL 6 (mouse)Not determinedX5077237570434751Mouse
25314311Syncl3_msynaptonemal complex length 3 (mouse)X5198887789743606Mouse
4142286Pubt1_mpubertal timing 1 (mouse)Not determined5241220061880496Mouse
4141126Lvic5_mliver iron content 5 (mouse)Not determined5241220063027567Mouse
13824980Ferq1_mgenetic fertility QTL 1 (mouse)X54045360148782996Mouse
10412108Desp5_mdespair 5 (mouse)Not determinedX5472235188722351Mouse
13464140Hdlq108_mHDL QTL 108 (mouse)X5777196091771960Mouse
12880401Emlq3_memotional learning QTL 3 (mouse)X5799218370090431Mouse

Markers in Region
UniSTS:238031  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X61,143,572 - 61,143,908UniSTSGRCm38
MGSCv37X58,396,747 - 58,397,083UniSTSGRCm37
CeleraX47,579,571 - 47,579,907UniSTS
Cytogenetic MapXA6UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000096426
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,160,004 - 60,219,597 (+)Ensembl
GRCm38.p6 EnsemblX61,116,398 - 61,175,991 (+)Ensembl
RefSeq Acc Id: ENSMUST00000125930
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,992 - 60,183,069 (+)Ensembl
GRCm38.p6 EnsemblX61,116,386 - 61,139,463 (+)Ensembl
RefSeq Acc Id: ENSMUST00000137153
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,992 - 60,164,257 (+)Ensembl
GRCm38.p6 EnsemblX61,116,386 - 61,120,651 (+)Ensembl
RefSeq Acc Id: ENSMUST00000140023
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,992 - 60,178,402 (+)Ensembl
GRCm38.p6 EnsemblX61,116,386 - 61,134,796 (+)Ensembl
RefSeq Acc Id: ENSMUST00000144853
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,984 - 60,219,929 (+)Ensembl
GRCm38.p6 EnsemblX61,116,378 - 61,176,323 (+)Ensembl
RefSeq Acc Id: ENSMUST00000231449
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,992 - 60,247,391 (+)Ensembl
GRCm38.p6 EnsemblX61,116,386 - 61,203,785 (+)Ensembl
RefSeq Acc Id: ENSMUST00000232057
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,225,156 - 60,227,280 (+)Ensembl
GRCm38.p6 EnsemblX61,181,550 - 61,183,674 (+)Ensembl
RefSeq Acc Id: ENSMUST00000232283
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,984 - 60,205,219 (+)Ensembl
GRCm38.p6 EnsemblX61,116,378 - 61,161,613 (+)Ensembl
RefSeq Acc Id: ENSMUST00000232525
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX60,159,992 - 60,237,768 (+)Ensembl
GRCm38.p6 EnsemblX61,116,386 - 61,194,162 (+)Ensembl
RefSeq Acc Id: NR_030706
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,183,066 (+)NCBI
GRCm38X61,116,378 - 61,139,460 (+)ENTREZGENE
MGSCv37X58,369,553 - 58,392,635 (+)RGD
CeleraX47,552,228 - 47,575,470 (+)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NR_173098
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,237,771 (+)NCBI
RefSeq Acc Id: NR_173099
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,247,391 (+)NCBI
RefSeq Acc Id: NR_173100
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,164,257 (+)NCBI
RefSeq Acc Id: NR_173101
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,219,929 (+)NCBI
RefSeq Acc Id: NR_173102
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,219,929 (+)NCBI
RefSeq Acc Id: NR_173103
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,205,219 (+)NCBI
RefSeq Acc Id: NR_173104
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,159,984 - 60,178,402 (+)NCBI
RefSeq Acc Id: NR_173105
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X60,225,156 - 60,227,280 (+)NCBI
Protein Sequences
GenBank Protein BAC38408 (Get FASTA)   NCBI Sequence Viewer  
  EDL42191 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Promoters
RGD ID:15095114
Promoter ID:EPDNEWNC_M3034
Type:multiple initiation site
Name:C230004F18Rik_1
Description:RIKEN cDNA C230004F18 gene [Source:MGISymbol;Acc:MGI:3041217]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X61,116,378 - 61,116,438EPDNEWNC
RGD ID:13680594
Promoter ID:EPDNEW_M24446
Type:multiple initiation site
Name:C230004F18Rik_1
Description:Mus musculus RIKEN cDNA C230004F18 gene , long non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X61,116,378 - 61,116,438EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000071753 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000125930 ENTREZGENE
  ENSMUST00000137153 ENTREZGENE
  ENSMUST00000140023 ENTREZGENE
  ENSMUST00000144853 ENTREZGENE
  ENSMUST00000231449 ENTREZGENE
  ENSMUST00000232057 ENTREZGENE
  ENSMUST00000232283 ENTREZGENE
  ENSMUST00000232525 ENTREZGENE
MGD MGI:5637821 ENTREZGENE
NCBI Gene 331424 ENTREZGENE
PhenoGen Cdr1os PhenoGen
RNAcentral URS000075A08D RNACentral
  URS0000D701BA RNACentral
  URS0000D7087B RNACentral
  URS0000D70EA4 RNACentral
  URS00022AE707 RNACentral
  URS00022AE717 RNACentral
  URS00022AE731 RNACentral
  URS00022AE75C RNACentral
  URS00022AE7E8 RNACentral
UniProt Q8C4I6_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-09-13 Cdr1os  cerebellar degeneration related antigen 1, opposite strand  C230004F18Rik  RIKEN cDNA C230004F18 gene  Symbol and/or name change 5135510 APPROVED