Cbx5 (chromobox 5) - Rat Genome Database

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Gene: Cbx5 (chromobox 5) Mus musculus
Analyze
Symbol: Cbx5
Name: chromobox 5
RGD ID: 1315341
MGI Page MGI
Description: Enables several functions, including histone deacetylase binding activity; identical protein binding activity; and methylated histone binding activity. Acts upstream of or within negative regulation of DNA-templated transcription. Located in chromocenter; chromosomal region; and nucleolus. Part of histone deacetylase complex; histone methyltransferase complex; and transcription repressor complex. Is expressed in several structures, including alimentary system; early embryo; genitourinary system; nervous system; and sensory organ. Orthologous to human CBX5 (chromobox 5).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2610029O15Rik; C75991; chromobox homolog 5; chromobox protein homolog 5; heterochromatin protein 1 alpha; heterochromatin protein 1 homolog alpha; HP; HP1; HP1 alpha; Hp1a; Hp1alpha; mHP1(alpha)
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Gm13005   Gm18777  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915103,099,973 - 103,148,337 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15103,099,971 - 103,148,243 (-)EnsemblGRCm39 Ensembl
GRCm3815103,191,546 - 103,239,904 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,191,544 - 103,239,816 (-)EnsemblGRCm38mm10GRCm38
MGSCv3715103,021,977 - 103,070,247 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615103,019,130 - 103,043,372 (-)NCBIMGSCv36mm8
Celera15105,352,806 - 105,401,405 (-)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(1->4)-beta-D-glucan  (EXP)
(S)-nicotine  (EXP)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,6-dinitrotoluene  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (ISO)
atrazine  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
butanal  (ISO)
butylated hydroxyanisole  (ISO)
cadmium dichloride  (ISO)
caffeine  (EXP)
carbon nanotube  (EXP)
chlorpyrifos  (EXP)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (EXP)
Cuprizon  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (EXP)
dibutyl phthalate  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenbendazole  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
genistein  (ISO)
haloperidol  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
methimazole  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (EXP)
nicotine  (EXP)
O-methyleugenol  (ISO)
oxaliplatin  (ISO)
ozone  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP)
phenethyl isothiocyanate  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (ISO)
sunitinib  (ISO)
testosterone enanthate  (ISO)
thimerosal  (ISO)
thioacetamide  (ISO)
thiram  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (EXP)
triphenyl phosphate  (ISO)
troglitazone  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Identification and characterization of ZFP-57, a novel zinc finger transcription factor in the mammalian peripheral nervous system. Alonso MB, etal., J Biol Chem 2004 Jun 11;279(24):25653-64. Epub 2004 Apr 07.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, etal., Development 2000 Apr;127(8):1737-49.
4. A possible involvement of TIF1 alpha and TIF1 beta in the epigenetic control of transcription by nuclear receptors. Le Douarin B, etal., EMBO J 1996 Dec 2;15(23):6701-15.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
7. Readout of epigenetic modifications. Patel DJ and Wang Z, Annu Rev Biochem. 2013;82:81-118. doi: 10.1146/annurev-biochem-072711-165700.
8. Mouse MP Annotation Import Pipeline RGD automated import pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. The heterochromatin protein 1 family is regulated in prostate development and cancer. Shapiro E, etal., J Urol. 2008 Jun;179(6):2435-9. doi: 10.1016/j.juro.2008.01.091. Epub 2008 Apr 23.
12. Network biology of tumor stem-like cells identified a regulatory role of CBX5 in lung cancer. Yu YH, etal., Sci Rep. 2012;2:584. doi: 10.1038/srep00584. Epub 2012 Aug 16.
Additional References at PubMed
PMID:1653172   PMID:8287692   PMID:8889548   PMID:10318760   PMID:10349636   PMID:10562550   PMID:10747027   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11101528   PMID:11107181  
PMID:11242053   PMID:11544199   PMID:11571267   PMID:11793364   PMID:11956312   PMID:12154074   PMID:12231507   PMID:12242305   PMID:12477932   PMID:12520002   PMID:12565857   PMID:12904583  
PMID:14519686   PMID:14570930   PMID:14610273   PMID:14681479   PMID:14729942   PMID:14730304   PMID:14765118   PMID:15085137   PMID:15145825   PMID:15306854   PMID:15322135   PMID:15342492  
PMID:15489334   PMID:15564378   PMID:15680362   PMID:15998811   PMID:16127177   PMID:16141072   PMID:16141073   PMID:16537902   PMID:16602821   PMID:16778019   PMID:16950245   PMID:17135209  
PMID:17222401   PMID:17284516   PMID:17314413   PMID:17381543   PMID:17406994   PMID:17520166   PMID:17627279   PMID:17698499   PMID:17855382   PMID:17891782   PMID:17967808   PMID:18075750  
PMID:18287239   PMID:18418073   PMID:18579779   PMID:18799693   PMID:18818693   PMID:19948116   PMID:20110566   PMID:20219459   PMID:20423503   PMID:20713013   PMID:21122806   PMID:21163256  
PMID:21245376   PMID:21317888   PMID:21327095   PMID:21464229   PMID:21576353   PMID:21677750   PMID:21746811   PMID:21778144   PMID:21873635   PMID:21940502   PMID:21966530   PMID:22101327  
PMID:22388734   PMID:22403008   PMID:22622086   PMID:22670227   PMID:22763435   PMID:23023195   PMID:23645681   PMID:23748610   PMID:24527388   PMID:24584199   PMID:24735877   PMID:25036950  
PMID:25680957   PMID:25737280   PMID:26238434   PMID:26359759   PMID:26365490   PMID:27299863   PMID:27352031   PMID:27820601   PMID:28059589   PMID:28250819   PMID:28595999   PMID:28794184  
PMID:29795351   PMID:29848638   PMID:29955894   PMID:30186101   PMID:30196744   PMID:30973865   PMID:31077711   PMID:31095524   PMID:31130069   PMID:31799602   PMID:31825833   PMID:31961023  
PMID:32020053   PMID:32098917   PMID:32325033   PMID:34321999   PMID:34721405   PMID:34859928   PMID:34875339   PMID:35166421   PMID:38355793   PMID:38616920   PMID:38812060  


Genomics

Comparative Map Data
Cbx5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915103,099,973 - 103,148,337 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15103,099,971 - 103,148,243 (-)EnsemblGRCm39 Ensembl
GRCm3815103,191,546 - 103,239,904 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,191,544 - 103,239,816 (-)EnsemblGRCm38mm10GRCm38
MGSCv3715103,021,977 - 103,070,247 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615103,019,130 - 103,043,372 (-)NCBIMGSCv36mm8
Celera15105,352,806 - 105,401,405 (-)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.34NCBI
CBX5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381254,230,942 - 54,280,122 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1254,230,942 - 54,280,133 (-)EnsemblGRCh38hg38GRCh38
GRCh371254,624,726 - 54,673,906 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361252,921,677 - 52,960,151 (-)NCBINCBI36Build 36hg18NCBI36
Build 341252,921,677 - 52,960,151NCBI
Celera1254,276,743 - 54,325,894 (-)NCBICelera
Cytogenetic Map12q13.13NCBI
HuRef1251,663,959 - 51,713,186 (-)NCBIHuRef
CHM1_11254,591,455 - 54,640,653 (-)NCBICHM1_1
T2T-CHM13v2.01254,197,516 - 54,246,699 (-)NCBIT2T-CHM13v2.0
Cbx5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,203,827 - 136,254,575 (-)NCBIGRCr8
mRatBN7.27134,333,165 - 134,376,102 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,331,335 - 134,375,022 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7136,088,404 - 136,105,880 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,317,781 - 138,335,258 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,303,847 - 138,321,314 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07144,819,673 - 144,865,014 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7144,819,420 - 144,837,583 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07142,605,275 - 142,647,738 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47142,107,922 - 142,125,543 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17142,187,961 - 142,229,833 (-)NCBI
Celera7130,758,832 - 130,776,255 (-)NCBICelera
Cytogenetic Map7q36NCBI
Cbx5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554581,486,951 - 1,505,653 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554581,486,951 - 1,529,649 (-)NCBIChiLan1.0ChiLan1.0
CBX5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21039,891,136 - 39,948,939 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11239,887,905 - 39,945,708 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01234,463,826 - 34,521,656 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11235,189,095 - 35,246,660 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1235,218,239 - 35,236,009 (+)Ensemblpanpan1.1panPan2
CBX5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1271,020,500 - 1,058,027 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl271,039,594 - 1,049,788 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2745,197,396 - 45,234,943 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0271,017,407 - 1,054,956 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl271,017,441 - 1,054,183 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1271,036,373 - 1,073,913 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0271,017,977 - 1,055,663 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02745,601,201 - 45,638,748 (-)NCBIUU_Cfam_GSD_1.0
Cbx5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494561,683,589 - 61,723,060 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651211,450,060 - 11,480,727 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651211,441,770 - 11,480,924 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBX5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl519,446,086 - 19,484,463 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1519,446,083 - 19,484,527 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2520,290,445 - 20,329,012 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CBX5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11150,350,440 - 50,396,595 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1150,353,638 - 50,396,608 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037195,645,487 - 195,688,609 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cbx5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249042,276,036 - 2,296,706 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249042,273,054 - 2,313,723 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cbx5
1261 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:4135
Count of miRNA genes:922
Interacting mature miRNAs:1282
Transcripts:ENSMUST00000108813, ENSMUST00000118152, ENSMUST00000122182, ENSMUST00000127191
Prediction methods: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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585901546104073951Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
4141581Dshv1_mdorsal hippocampal volume 1 (mouse)Not determined92788640103425899Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585896437104073951Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585896437104073951Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585896437104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse

Markers in Region
C75991  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3815103,199,306 - 103,199,418UniSTSGRCm38
MGSCv3715103,029,737 - 103,029,849UniSTSGRCm37
Celera15105,360,566 - 105,360,678UniSTS
Cytogenetic Map15F3UniSTS
Whitehead/MRC_RH15911.86UniSTS
UniSTS:237402  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3815103,198,039 - 103,198,247UniSTSGRCm38
MGSCv3715103,028,470 - 103,028,678UniSTSGRCm37
Celera15105,359,299 - 105,359,507UniSTS
Cytogenetic Map15F3UniSTS
UniSTS:237404  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3815103,192,782 - 103,192,913UniSTSGRCm38
MGSCv3715103,023,213 - 103,023,344UniSTSGRCm37
Celera15105,354,042 - 105,354,173UniSTS
Cytogenetic Map15F3UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001076789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001110216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001358950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_007626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006520372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006520374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006520375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006520376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006520377 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030248308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC162693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC164069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK008792 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK011031 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK018349 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK019198 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK030366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK030442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK031776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK032975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK076013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK083928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK088264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC004707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM247903 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ077812 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ714444 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X99641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000108813   ⟹   ENSMUSP00000104441
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15103,105,114 - 103,123,779 (-)Ensembl
GRCm38.p6 Ensembl15103,196,687 - 103,215,352 (-)Ensembl
Ensembl Acc Id: ENSMUST00000118152   ⟹   ENSMUSP00000113157
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15103,099,971 - 103,148,243 (-)Ensembl
GRCm38.p6 Ensembl15103,191,544 - 103,239,816 (-)Ensembl
Ensembl Acc Id: ENSMUST00000122182   ⟹   ENSMUSP00000113158
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15103,107,682 - 103,123,732 (-)Ensembl
GRCm38.p6 Ensembl15103,199,255 - 103,215,305 (-)Ensembl
Ensembl Acc Id: ENSMUST00000127191   ⟹   ENSMUSP00000120837
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15103,121,509 - 103,123,793 (-)Ensembl
GRCm38.p6 Ensembl15103,213,082 - 103,215,366 (-)Ensembl
RefSeq Acc Id: NM_001076789   ⟹   NP_001070257
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,973 - 103,148,279 (-)NCBI
GRCm3815103,191,546 - 103,239,852 (-)NCBI
MGSCv3715103,021,977 - 103,070,247 (-)RGD
Celera15105,352,806 - 105,401,405 (-)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001110216   ⟹   NP_001103686
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,973 - 103,123,779 (-)NCBI
GRCm3815103,191,546 - 103,215,352 (-)NCBI
MGSCv3715103,021,977 - 103,070,247 (-)RGD
Celera15105,352,806 - 105,401,405 (-)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001358950   ⟹   NP_001345879
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,973 - 103,148,279 (-)NCBI
GRCm3815103,191,546 - 103,239,852 (-)NCBI
Sequence:
RefSeq Acc Id: NM_007626   ⟹   NP_031652
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,973 - 103,123,779 (-)NCBI
GRCm3815103,191,546 - 103,215,352 (-)NCBI
MGSCv3715103,021,977 - 103,070,247 (-)RGD
Celera15105,352,806 - 105,401,405 (-)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006520372   ⟹   XP_006520435
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,977 - 103,148,325 (-)NCBI
GRCm3815103,191,678 - 103,239,861 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006520374   ⟹   XP_006520437
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,977 - 103,123,806 (-)NCBI
GRCm3815103,191,678 - 103,215,361 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006520375   ⟹   XP_006520438
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,977 - 103,123,789 (-)NCBI
GRCm3815103,191,678 - 103,215,355 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006520376   ⟹   XP_006520439
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,977 - 103,123,806 (-)NCBI
GRCm3815103,191,678 - 103,215,362 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006520377   ⟹   XP_006520440
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,109,224 - 103,148,337 (-)NCBI
GRCm3815103,200,797 - 103,239,904 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030248308   ⟹   XP_030104168
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915103,099,977 - 103,123,801 (-)NCBI
GRCm3815103,191,678 - 103,215,374 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001070257   ⟸   NM_001076789
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_031652   ⟸   NM_007626
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001103686   ⟸   NM_001110216
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006520435   ⟸   XM_006520372
- Peptide Label: isoform X1
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006520439   ⟸   XM_006520376
- Peptide Label: isoform X1
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006520437   ⟸   XM_006520374
- Peptide Label: isoform X1
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006520438   ⟸   XM_006520375
- Peptide Label: isoform X1
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006520440   ⟸   XM_006520377
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: NP_001345879   ⟸   NM_001358950
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_030104168   ⟸   XM_030248308
- Peptide Label: isoform X1
- UniProtKB: Q9CS35 (UniProtKB/Swiss-Prot),   Q61686 (UniProtKB/Swiss-Prot),   Q9CXD1 (UniProtKB/Swiss-Prot)
Ensembl Acc Id: ENSMUSP00000113157   ⟸   ENSMUST00000118152
Ensembl Acc Id: ENSMUSP00000120837   ⟸   ENSMUST00000127191
Ensembl Acc Id: ENSMUSP00000104441   ⟸   ENSMUST00000108813
Ensembl Acc Id: ENSMUSP00000113158   ⟸   ENSMUST00000122182
Protein Domains
Chromo

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q61686-F1-model_v2 AlphaFold Q61686 1-191 view protein structure

Promoters
RGD ID:6825842
Promoter ID:MM_KWN:19891
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_001110216,   NM_007626,   OTTMUST00000074869
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3615103,045,539 - 103,046,039 (-)MPROMDB
RGD ID:6825841
Promoter ID:MM_KWN:19893
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day6,   ES_Cell,   MEF_B6,   Spleen
Transcripts:ENSMUST00000118152
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3615103,069,836 - 103,070,967 (-)MPROMDB
RGD ID:8685256
Promoter ID:EPDNEW_M20658
Type:single initiation site
Name:Cbx5_2
Description:Mus musculus chromobox 5 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M20659  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3815103,225,672 - 103,225,732EPDNEW
RGD ID:8685258
Promoter ID:EPDNEW_M20659
Type:initiation region
Name:Cbx5_1
Description:Mus musculus chromobox 5 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M20658  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3815103,239,828 - 103,239,888EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:109372 AgrOrtholog
Ensembl Genes ENSMUSG00000009575 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000108813 ENTREZGENE
  ENSMUST00000108813.10 UniProtKB/Swiss-Prot
  ENSMUST00000118152 ENTREZGENE
  ENSMUST00000118152.8 UniProtKB/Swiss-Prot
  ENSMUST00000122182 ENTREZGENE
  ENSMUST00000122182.2 UniProtKB/Swiss-Prot
  ENSMUST00000127191.2 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Chromo-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chromo/chromo_shadow_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chromo_dom_subgr UniProtKB/Swiss-Prot
  Chromo_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chromo_shadow_dom UniProtKB/Swiss-Prot
  Chromodomain_CS UniProtKB/Swiss-Prot
  Heterochromatin_chromo-domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12419 UniProtKB/Swiss-Prot
MGD MGI:109372 ENTREZGENE
NCBI Gene 12419 ENTREZGENE
PANTHER CHROMOBOX PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Chromo UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chromo_shadow UniProtKB/Swiss-Prot
PhenoGen Cbx5 PhenoGen
PRINTS CHROMODOMAIN UniProtKB/Swiss-Prot
PROSITE CHROMO_1 UniProtKB/Swiss-Prot
  CHROMO_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CHROMO UniProtKB/Swiss-Prot
  ChSh UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54160 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CBX5_MOUSE UniProtKB/Swiss-Prot
  D3Z0U2_MOUSE UniProtKB/TrEMBL
  Q61686 ENTREZGENE
  Q9CS35 ENTREZGENE
  Q9CXD1 ENTREZGENE
UniProt Secondary Q9CS35 UniProtKB/Swiss-Prot
  Q9CXD1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-10 Cbx5  chromobox 5  Cbx5  chromobox homolog 5 (Drosophila HP1a)  Symbol and/or name change 5135510 APPROVED