Cbx5 (chromobox 5) - Rat Genome Database

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Gene: Cbx5 (chromobox 5) Rattus norvegicus
Analyze
Symbol: Cbx5
Name: chromobox 5
RGD ID: 1306619
Description: Predicted to enable several functions, including histone H3K9me2/3 reader activity; histone deacetylase binding activity; and identical protein binding activity. Predicted to be involved in DNA damage response; heterochromatin formation; and negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of DNA-templated transcription. Predicted to be located in chromocenter; chromosome; and nuclear lumen. Predicted to be part of nucleoplasm; ribonucleoprotein complex; and transcription repressor complex. Predicted to be active in pericentric heterochromatin. Orthologous to human CBX5 (chromobox 5); PARTICIPATES IN histone modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chromobox homolog 5; chromobox homolog 5 (Drosophila HP1a); chromobox homolog 5 (HP1 alpha homolog, Drosophila); chromobox protein homolog 5; LOC300266
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,203,827 - 136,254,575 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7136,211,649 - 136,229,118 (-)EnsemblGRCr8
mRatBN7.27134,333,165 - 134,376,102 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,331,335 - 134,375,022 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7136,088,404 - 136,105,880 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,317,781 - 138,335,258 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,303,847 - 138,321,314 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07144,819,673 - 144,865,014 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7144,819,420 - 144,837,583 (-)Ensemblrn6Rnor6.0
Rnor_5.07142,605,275 - 142,647,738 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47142,107,922 - 142,125,543 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7130,758,832 - 130,776,255 (-)NCBICelera
RGSC_v3.17142,187,961 - 142,229,833 (-)NCBI
Cytogenetic Map7q36NCBI
JBrowse:




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  (ISO)
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,6-dinitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
atrazine  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
butanal  (ISO)
butylated hydroxyanisole  (EXP)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
dibutyl phthalate  (EXP)
dimethyl sulfoxide  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenbendazole  (EXP)
formaldehyde  (ISO)
FR900359  (ISO)
genistein  (ISO)
GSK-J4  (ISO)
haloperidol  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (ISO)
nicotine  (ISO)
O-methyleugenol  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
quercetin  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
testosterone enanthate  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP,ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Readout of epigenetic modifications. Patel DJ and Wang Z, Annu Rev Biochem. 2013;82:81-118. doi: 10.1146/annurev-biochem-072711-165700.
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
8. 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.
9. 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:8978696   PMID:9636146   PMID:9636147   PMID:10318760   PMID:10562550   PMID:12242305   PMID:12477932   PMID:14519686   PMID:14730304   PMID:15070898   PMID:15998811   PMID:16127177  
PMID:17284516   PMID:18716626   PMID:19135898   PMID:19617346   PMID:19783980   PMID:20110566   PMID:20219459   PMID:21029866   PMID:21888893   PMID:22101327   PMID:27248496  


Genomics

Comparative Map Data
Cbx5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87136,203,827 - 136,254,575 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7136,211,649 - 136,229,118 (-)EnsemblGRCr8
mRatBN7.27134,333,165 - 134,376,102 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7134,331,335 - 134,375,022 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7136,088,404 - 136,105,880 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07138,317,781 - 138,335,258 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07138,303,847 - 138,321,314 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07144,819,673 - 144,865,014 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7144,819,420 - 144,837,583 (-)Ensemblrn6Rnor6.0
Rnor_5.07142,605,275 - 142,647,738 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47142,107,922 - 142,125,543 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7130,758,832 - 130,776,255 (-)NCBICelera
RGSC_v3.17142,187,961 - 142,229,833 (-)NCBI
Cytogenetic Map7q36NCBI
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 (-)Ensemblhg38GRCh38
GRCh371254,624,726 - 54,673,906 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361252,921,677 - 52,960,151 (-)NCBIBuild 36Build 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
(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 EnsemblGRCm39
GRCm3815103,191,546 - 103,239,904 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15103,191,544 - 103,239,816 (-)Ensemblmm10GRCm38
MGSCv3715103,021,977 - 103,070,247 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3615103,019,130 - 103,043,372 (-)NCBIMGSCv36mm8
Celera15105,352,806 - 105,401,405 (-)NCBICelera
Cytogenetic Map15F3NCBI
cM Map1558.34NCBI
Cbx5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554581,486,951 - 1,505,653 (-)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2745,197,396 - 45,234,943 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0271,017,407 - 1,054,956 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249042,273,054 - 2,313,723 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cbx5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11259,843,643 - 259,885,976 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:64
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000055289
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7121393075137014596Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)7132099939137014596Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7135371291137014596Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001106797 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001437938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC166908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC168739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000055289   ⟹   ENSRNOP00000052163
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7136,211,649 - 136,229,118 (-)Ensembl
mRatBN7.2 Ensembl7134,333,166 - 134,350,641 (-)Ensembl
Rnor_6.0 Ensembl7144,819,730 - 144,837,583 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000089024   ⟹   ENSRNOP00000073453
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7134,331,335 - 134,350,478 (-)Ensembl
Rnor_6.0 Ensembl7144,819,420 - 144,837,395 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120168   ⟹   ENSRNOP00000087859
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7134,333,453 - 134,375,022 (-)Ensembl
RefSeq Acc Id: NM_001106797   ⟹   NP_001100267
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,211,648 - 136,229,118 (-)NCBI
mRatBN7.27134,333,165 - 134,350,641 (-)NCBI
Rnor_6.07144,819,729 - 144,837,583 (-)NCBI
Rnor_5.07142,605,275 - 142,647,738 (-)NCBI
RGSC_v3.47142,107,922 - 142,125,543 (-)RGD
Celera7130,758,832 - 130,776,255 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242391   ⟹   XP_006242453
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,229,214 (-)NCBI
mRatBN7.27134,333,165 - 134,350,664 (-)NCBI
Rnor_6.07144,820,007 - 144,837,654 (-)NCBI
Rnor_5.07142,605,275 - 142,647,738 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242393   ⟹   XP_006242455
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,229,208 (-)NCBI
mRatBN7.27134,333,165 - 134,350,729 (-)NCBI
Rnor_6.07144,820,007 - 144,837,654 (-)NCBI
Rnor_5.07142,605,275 - 142,647,738 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765707   ⟹   XP_008763929
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,253,578 (-)NCBI
mRatBN7.27134,333,165 - 134,375,058 (-)NCBI
Rnor_6.07144,819,673 - 144,865,014 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017594793   ⟹   XP_017450282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,229,140 (-)NCBI
mRatBN7.27134,333,165 - 134,350,632 (-)NCBI
Rnor_6.07144,820,007 - 144,837,402 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039078942   ⟹   XP_038934870
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,253,512 (-)NCBI
mRatBN7.27134,333,165 - 134,375,049 (-)NCBI
RefSeq Acc Id: XM_039078943   ⟹   XP_038934871
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,229,175 (-)NCBI
mRatBN7.27134,333,165 - 134,350,639 (-)NCBI
RefSeq Acc Id: XM_039078944   ⟹   XP_038934872
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,254,575 (-)NCBI
mRatBN7.27134,333,165 - 134,376,102 (-)NCBI
RefSeq Acc Id: XM_039078946   ⟹   XP_038934874
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,203,827 - 136,253,242 (-)NCBI
mRatBN7.27134,333,165 - 134,374,011 (-)NCBI
RefSeq Acc Id: XM_063263390   ⟹   XP_063119460
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87136,213,212 - 136,253,578 (-)NCBI
RefSeq Acc Id: NP_001100267   ⟸   NM_001106797
- UniProtKB: B2RYU7 (UniProtKB/TrEMBL),   A6KCZ7 (UniProtKB/TrEMBL),   A0A0G2K5J8 (UniProtKB/TrEMBL),   A0A8I6A5A0 (UniProtKB/TrEMBL),   A6KCZ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242455   ⟸   XM_006242393
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242453   ⟸   XM_006242391
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008763929   ⟸   XM_008765707
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017450282   ⟸   XM_017594793
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000052163   ⟸   ENSRNOT00000055289
Ensembl Acc Id: ENSRNOP00000073453   ⟸   ENSRNOT00000089024
RefSeq Acc Id: XP_038934872   ⟸   XM_039078944
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038934870   ⟸   XM_039078942
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038934874   ⟸   XM_039078946
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038934871   ⟸   XM_039078943
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000087859   ⟸   ENSRNOT00000120168
RefSeq Acc Id: XP_063119460   ⟸   XM_063263390
- Peptide Label: isoform X2
Protein Domains
Chromo

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RYU7-F1-model_v2 AlphaFold B2RYU7 1-191 view protein structure

Transcriptome

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

Promoters
RGD ID:13695722
Promoter ID:EPDNEW_R6236
Type:single initiation site
Name:Cbx5_1
Description:chromobox 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6237  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07144,837,410 - 144,837,470EPDNEW
RGD ID:13695713
Promoter ID:EPDNEW_R6237
Type:multiple initiation site
Name:Cbx5_2
Description:chromobox 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6236  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07144,837,597 - 144,837,657EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306619 AgrOrtholog
BioCyc Gene G2FUF-31885 BioCyc
Ensembl Genes ENSRNOG00000036841 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055289 ENTREZGENE
  ENSRNOT00000055289.4 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6889335 IMAGE-MGC_LOAD
InterPro Chromo_dom_subgr UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
  Chromo_shadow UniProtKB/TrEMBL
  Chromodomain UniProtKB/TrEMBL
  Chromodomain-like UniProtKB/TrEMBL
  Chromodomain_CS UniProtKB/TrEMBL
  Heterochromatin_chromo-domain UniProtKB/TrEMBL
KEGG Report rno:300266 UniProtKB/TrEMBL
MGC_CLONE MGC:188878 IMAGE-MGC_LOAD
NCBI Gene 300266 ENTREZGENE
PANTHER CHROMOBOX PROTEIN UniProtKB/TrEMBL
Pfam Chromo UniProtKB/TrEMBL
  Chromo_shadow UniProtKB/TrEMBL
PhenoGen Cbx5 PhenoGen
PRINTS CHROMODOMAIN UniProtKB/TrEMBL
PROSITE CHROMO_1 UniProtKB/TrEMBL
  CHROMO_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000036841 RatGTEx
SMART CHROMO UniProtKB/TrEMBL
  ChSh UniProtKB/TrEMBL
Superfamily-SCOP Chromodomain-like UniProtKB/TrEMBL
UniProt A0A0G2K5J8 ENTREZGENE
  A0A8I6A5A0 ENTREZGENE
  A6KCZ7 ENTREZGENE
  A6KCZ8 ENTREZGENE, UniProtKB/TrEMBL
  B2RYU7 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A6KCZ7 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Cbx5  chromobox 5  Cbx5  chromobox homolog 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-07-29 Cbx5  chromobox homolog 5  Cbx5  chromobox homolog 5 (HP1 alpha homolog, Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Cbx5  chromobox homolog 5 (HP1 alpha homolog, Drosophila)  Cbx5  chromobox homolog 5 (Drosophila HP1a)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cbx5  chromobox homolog 5 (Drosophila HP1a)   Cbx5_predicted  chromobox homolog 5 (Drosophila HP1a) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cbx5_predicted  chromobox homolog 5 (Drosophila HP1a) (predicted)      Symbol and Name status set to approved 70820 APPROVED