Cbx3 (chromobox 3) - Rat Genome Database

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Gene: Cbx3 (chromobox 3) Rattus norvegicus
Analyze
Symbol: Cbx3
Name: chromobox 3
RGD ID: 1549705
Description: Predicted to enable several functions, including histone methyltransferase binding activity; identical protein binding activity; and transcription coregulator binding activity. Involved in cellular response to dexamethasone stimulus. Located in senescence-associated heterochromatin focus. Orthologous to human CBX3 (chromobox 3); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chromobox homolog 3; chromobox homolog 3 (HP1 gamma homolog, Drosophila); chromobox protein homolog 3; heterochromatin protein 1 gamma; HP1 gamma; Hp1-gamma; MGC105792; MGC105793; MGC156678; MGC94711
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Cbx3l1   Cbx3l2   Cbx3l3  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8481,876,155 - 81,889,912 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl481,876,649 - 81,889,911 (+)EnsemblGRCr8
mRatBN7.2480,545,450 - 80,559,284 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4162,337,682 - 162,338,233 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl480,546,010 - 80,559,283 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx485,770,325 - 85,783,553 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0481,545,719 - 81,558,947 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0479,985,145 - 79,998,366 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0481,243,809 - 81,257,898 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl481,244,469 - 81,257,897 (+)Ensemblrn6Rnor6.0
Rnor_5.04145,909,973 - 145,924,082 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4479,707,325 - 79,720,100 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera475,446,761 - 75,459,968 (+)NCBICelera
Cytogenetic Map4q24NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
4,4'-sulfonyldiphenol  (EXP,ISO)
9-cis-retinoic acid  (ISO)
acetazolamide  (ISO)
aflatoxin B1  (ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
bortezomib  (ISO)
Brodifacoum  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
diquat  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethyl methanesulfonate  (ISO)
finasteride  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
Monobutylphthalate  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
nicotine  (ISO)
ochratoxin A  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP)
pinosylvin  (ISO)
pirinixic acid  (ISO)
quinoline  (ISO)
raloxifene  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
tamibarotene  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trans-pinosylvin  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

References

References - curated
# Reference Title Reference Citation
1. Glucocorticoids induce long-lasting effects in neural stem cells resulting in senescence-related alterations. Bose R, etal., Cell Death Dis. 2010 Nov 4;1:e92.
2. 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.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. 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.
8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:8663349   PMID:9636147   PMID:10504293   PMID:10562550   PMID:11101528   PMID:11124534   PMID:15322135   PMID:15469996   PMID:16287503   PMID:16880268   PMID:17540172   PMID:19135898  
PMID:19486527   PMID:20219459   PMID:21888893   PMID:24413057   PMID:27248496   PMID:30305677   PMID:35352799  


Genomics

Comparative Map Data
Cbx3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8481,876,155 - 81,889,912 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl481,876,649 - 81,889,911 (+)EnsemblGRCr8
mRatBN7.2480,545,450 - 80,559,284 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4162,337,682 - 162,338,233 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl480,546,010 - 80,559,283 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx485,770,325 - 85,783,553 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0481,545,719 - 81,558,947 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0479,985,145 - 79,998,366 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0481,243,809 - 81,257,898 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl481,244,469 - 81,257,897 (+)Ensemblrn6Rnor6.0
Rnor_5.04145,909,973 - 145,924,082 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4479,707,325 - 79,720,100 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera475,446,761 - 75,459,968 (+)NCBICelera
Cytogenetic Map4q24NCBI
CBX3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38726,201,443 - 26,213,607 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl726,201,162 - 26,213,607 (+)Ensemblhg38GRCh38
GRCh37726,241,063 - 26,253,227 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36726,207,624 - 26,219,501 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34726,014,563 - 26,026,216NCBI
Celera726,230,084 - 26,241,954 (+)NCBICelera
Cytogenetic Map7p15.2NCBI
HuRef726,122,745 - 26,135,135 (+)NCBIHuRef
CHM1_1726,234,045 - 26,252,803 (+)NCBICHM1_1
T2T-CHM13v2.0726,337,121 - 26,349,288 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2726,291,980 - 26,304,374 (+)NCBI
Cbx3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39651,447,596 - 51,460,684 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl651,447,340 - 51,460,684 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38651,470,154 - 51,483,704 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl651,470,360 - 51,483,704 (+)Ensemblmm10GRCm38
MGSCv37651,420,615 - 51,433,703 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36651,399,943 - 51,426,513 (+)NCBIMGSCv36mm8
Celera651,988,350 - 52,001,439 (+)NCBICelera
Cytogenetic Map6B3NCBI
cM Map624.89NCBI
Cbx3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541028,043,110 - 28,052,616 (+)Ensembl
ChiLan1.0NW_00495541028,042,627 - 28,052,616 (+)NCBIChiLan1.0ChiLan1.0
CBX3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2631,031,316 - 31,043,199 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1779,356,042 - 79,367,925 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0726,847,247 - 26,859,339 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1726,450,411 - 26,462,563 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl726,450,411 - 26,462,350 (+)EnsemblpanPan2panpan1.1
CBX3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11439,510,694 - 39,520,796 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1439,510,112 - 39,519,809 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1438,999,924 - 39,011,647 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01439,447,799 - 39,459,552 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1439,447,974 - 39,459,552 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11439,562,860 - 39,574,595 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01439,250,004 - 39,261,736 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01439,600,666 - 39,612,399 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cbx3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511883,769,172 - 83,777,598 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364782,981,228 - 2,989,324 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364782,981,218 - 2,989,329 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBX3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1846,193,140 - 46,204,714 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11846,193,138 - 46,205,114 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21850,968,275 - 50,980,400 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CBX3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12132,154,707 - 32,166,843 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2132,155,839 - 32,166,114 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604272,523,268 - 72,535,452 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cbx3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247394,332,975 - 4,343,155 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247394,331,948 - 4,342,353 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cbx3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1689,610,758 - 89,624,474 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cbx3
81 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:696
Count of miRNA genes:294
Interacting mature miRNAs:369
Transcripts:ENSRNOT00000015828, ENSRNOT00000044407
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)459753119104753119Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44140057786400577Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44442502489425024Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)480212111119233320Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458817672103817672Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)471647492116647492Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44140060386400603Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)43044896182336920Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
2317586Eae25Experimental allergic encephalomyelitis QTL 259.300000190734863nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)48021363484338055Rat
61364Iddm2Insulin dependent diabetes mellitus QTL 2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)480216705104243248Rat
2317588Eae27Experimental allergic encephalomyelitis QTL 27nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)469036742114036742Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)457613242102613242Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)457613242102613242Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)457613242102613242Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45807987582597589Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
2306545Iddm39Insulin dependent diabetes mellitus QTL 39blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478687630123687630Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41170660492690519Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)474169813134199155Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)459836842104836842Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)43726957782269577Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)46104105794638356Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)44140057786400577Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45807987592690793Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46390045888813920Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat

Markers in Region
UniSTS:238126  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21629,187,987 - 29,188,532 (+)MAPPERmRatBN7.2
mRatBN7.2568,280,773 - 68,281,315 (+)MAPPERmRatBN7.2
Rnor_6.0570,462,975 - 70,463,516NCBIRnor6.0
Rnor_6.01632,509,512 - 32,510,056NCBIRnor6.0
Rnor_5.01632,344,352 - 32,344,896UniSTSRnor5.0
Rnor_5.0574,620,539 - 74,621,080UniSTSRnor5.0
RGSC_v3.4571,095,184 - 71,095,725UniSTSRGSC3.4
RGSC_v3.41632,507,686 - 32,508,230UniSTSRGSC3.4
Celera1629,182,635 - 29,183,179UniSTS
Celera567,175,084 - 67,175,625UniSTS
Cytogenetic Map5q24UniSTS
Cytogenetic Map16p12UniSTS
Cytogenetic Map4q24UniSTS
RH137086  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map4q24UniSTS
RH139245  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23118,679,429 - 118,679,551 (+)MAPPERmRatBN7.2
mRatBN7.2480,545,055 - 80,545,177 (+)MAPPERmRatBN7.2
Rnor_6.0481,243,498 - 81,243,619NCBIRnor6.0
Rnor_6.03124,014,086 - 124,014,207NCBIRnor6.0
Rnor_5.04145,909,682 - 145,909,803UniSTSRnor5.0
Rnor_5.03130,510,840 - 130,510,961UniSTSRnor5.0
RGSC_v3.43119,167,545 - 119,167,666UniSTSRGSC3.4
RGSC_v3.4479,706,329 - 79,706,450UniSTSRGSC3.4
Celera475,445,776 - 75,445,897UniSTS
Celera3117,485,561 - 117,485,682UniSTS
RH 3.4 Map4526.02UniSTS
Cytogenetic Map4q24UniSTS
Cytogenetic Map3q36UniSTS
AW528373  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8481,877,249 - 81,877,434 (+)Marker Load Pipeline
mRatBN7.2480,546,621 - 80,546,806 (+)MAPPERmRatBN7.2
Rnor_6.0481,245,069 - 81,245,253NCBIRnor6.0
Rnor_5.04145,911,253 - 145,911,437UniSTSRnor5.0
RGSC_v3.4479,707,896 - 79,708,080UniSTSRGSC3.4
Celera475,447,332 - 75,447,516UniSTS
RH 3.4 Map4489.81UniSTS
Cytogenetic Map4q24UniSTS


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


Ensembl Acc Id: ENSRNOT00000015828   ⟹   ENSRNOP00000015828
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl481,876,649 - 81,889,910 (+)Ensembl
mRatBN7.2 Ensembl480,546,010 - 80,559,281 (+)Ensembl
Rnor_6.0 Ensembl481,244,498 - 81,257,897 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000044407   ⟹   ENSRNOP00000046151
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl481,876,650 - 81,889,911 (+)Ensembl
mRatBN7.2 Ensembl480,546,022 - 80,559,283 (+)Ensembl
Rnor_6.0 Ensembl481,244,469 - 81,257,897 (+)Ensembl
RefSeq Acc Id: NM_001008313   ⟹   NP_001008314
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,876,679 - 81,889,912 (+)NCBI
mRatBN7.2480,546,051 - 80,559,284 (+)NCBI
Rnor_6.0481,244,498 - 81,257,898 (+)NCBI
Rnor_5.04145,909,973 - 145,924,082 (+)NCBI
RGSC_v3.4479,707,325 - 79,720,100 (+)RGD
Celera475,446,761 - 75,459,968 (+)RGD
Sequence:
RefSeq Acc Id: XM_006236484   ⟹   XP_006236546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,876,585 - 81,889,912 (+)NCBI
mRatBN7.2480,545,450 - 80,559,284 (+)NCBI
Rnor_6.0481,243,809 - 81,257,898 (+)NCBI
Rnor_5.04145,909,973 - 145,924,082 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039107302   ⟹   XP_038963230
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,877,389 - 81,889,912 (+)NCBI
mRatBN7.2480,546,562 - 80,559,284 (+)NCBI
RefSeq Acc Id: XM_039107304   ⟹   XP_038963232
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,877,116 - 81,889,912 (+)NCBI
mRatBN7.2480,546,488 - 80,559,284 (+)NCBI
RefSeq Acc Id: XM_039107305   ⟹   XP_038963233
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,876,155 - 81,889,912 (+)NCBI
mRatBN7.2480,545,450 - 80,559,284 (+)NCBI
RefSeq Acc Id: XM_039107306   ⟹   XP_038963234
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,876,582 - 81,889,912 (+)NCBI
mRatBN7.2480,545,450 - 80,559,284 (+)NCBI
RefSeq Acc Id: XM_063285770   ⟹   XP_063141840
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8481,876,395 - 81,889,912 (+)NCBI
RefSeq Acc Id: NP_001008314   ⟸   NM_001008313
- UniProtKB: Q5RJK5 (UniProtKB/TrEMBL),   A0JPM8 (UniProtKB/TrEMBL),   D3ZRS6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236546   ⟸   XM_006236484
- Peptide Label: isoform X1
- UniProtKB: Q5RJK5 (UniProtKB/TrEMBL),   A0JPM8 (UniProtKB/TrEMBL),   D3ZRS6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000046151   ⟸   ENSRNOT00000044407
Ensembl Acc Id: ENSRNOP00000015828   ⟸   ENSRNOT00000015828
RefSeq Acc Id: XP_038963234   ⟸   XM_039107306
- Peptide Label: isoform X2
- UniProtKB: D3ZRS6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038963233   ⟸   XM_039107305
- Peptide Label: isoform X1
- UniProtKB: Q5RJK5 (UniProtKB/TrEMBL),   A0JPM8 (UniProtKB/TrEMBL),   D3ZRS6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038963232   ⟸   XM_039107304
- Peptide Label: isoform X1
- UniProtKB: Q5RJK5 (UniProtKB/TrEMBL),   A0JPM8 (UniProtKB/TrEMBL),   D3ZRS6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038963230   ⟸   XM_039107302
- Peptide Label: isoform X1
- UniProtKB: Q5RJK5 (UniProtKB/TrEMBL),   A0JPM8 (UniProtKB/TrEMBL),   D3ZRS6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063141840   ⟸   XM_063285770
- Peptide Label: isoform X2
- UniProtKB: D3ZRS6 (UniProtKB/TrEMBL)
Protein Domains
Chromo

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5RJK5-F1-model_v2 AlphaFold Q5RJK5 1-183 view protein structure

Transcriptome

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

Promoters
RGD ID:13693051
Promoter ID:EPDNEW_R3571
Type:initiation region
Name:Cbx3_1
Description:chromobox 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0481,244,470 - 81,244,530EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1549705 AgrOrtholog
BioCyc Gene G2FUF-44855 BioCyc
Ensembl Genes ENSRNOG00000011814 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000030902 Ensembl
  ENSRNOG00000079431 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015828 ENTREZGENE
  ENSRNOT00000015828.9 UniProtKB/TrEMBL
  ENSRNOT00000044407.6 UniProtKB/TrEMBL
  ENSRNOT00000131541.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7313954 IMAGE-MGC_LOAD
  IMAGE:7380822 IMAGE-MGC_LOAD
InterPro CBX3 UniProtKB/TrEMBL
  Chromo_dom_subgr UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
  Chromo_shadow_dom UniProtKB/TrEMBL
  Chromodomain UniProtKB/TrEMBL
  Chromodomain-like UniProtKB/TrEMBL
  Chromodomain_CS UniProtKB/TrEMBL
  Heterochromatin_chromo-domain UniProtKB/TrEMBL
KEGG Report rno:297093 UniProtKB/TrEMBL
MGC_CLONE MGC:105793 IMAGE-MGC_LOAD
  MGC:156678 IMAGE-MGC_LOAD
NCBI Gene 297093 ENTREZGENE
PANTHER CHROMOBOX PROTEIN UniProtKB/TrEMBL
Pfam Chromo UniProtKB/TrEMBL
  Chromo_shadow UniProtKB/TrEMBL
PhenoGen Cbx3 PhenoGen
PRINTS CHROMODOMAIN UniProtKB/TrEMBL
PROSITE CHROMO_1 UniProtKB/TrEMBL
  CHROMO_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011814 RatGTEx
  ENSRNOG00000030902 RatGTEx
  ENSRNOG00000079431 RatGTEx
SMART CHROMO UniProtKB/TrEMBL
  ChSh UniProtKB/TrEMBL
Superfamily-SCOP Chromodomain-like UniProtKB/TrEMBL
UniProt A0JPM8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZRS6 ENTREZGENE
  Q5RJK5 ENTREZGENE, UniProtKB/TrEMBL
  Q5RJL1_RAT UniProtKB/TrEMBL
UniProt Secondary F7EWT2 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Cbx3  chromobox 3  Cbx3  chromobox homolog 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-07-29 Cbx3  chromobox homolog 3  Cbx3  chromobox homolog 3 (HP1 gamma homolog, Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-09-15 Cbx3  chromobox homolog 3 (HP1 gamma homolog, Drosophila)      Symbol and Name status set to provisional 70820 PROVISIONAL