Cbx6 (chromobox 6) - Rat Genome Database

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Gene: Cbx6 (chromobox 6) Rattus norvegicus
Analyze
Symbol: Cbx6
Name: chromobox 6
RGD ID: 1307314
Description: Predicted to enable chromatin binding activity and single-stranded RNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in heterochromatin and nucleus. Predicted to be part of PRC1 complex. Predicted to be active in chromatin. Orthologous to human CBX6 (chromobox 6); PARTICIPATES IN histone modification pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chromobox homolog 6; chromobox protein homolog 6; LOC315136
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87113,253,364 - 113,263,413 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7113,253,364 - 113,263,413 (-)EnsemblGRCr8
mRatBN7.27111,372,979 - 111,383,026 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7111,372,980 - 111,383,091 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7113,120,974 - 113,130,993 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07115,344,512 - 115,354,531 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07115,313,857 - 115,323,876 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07121,047,996 - 121,058,109 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7121,050,302 - 121,058,029 (-)Ensemblrn6Rnor6.0
Rnor_5.07121,038,955 - 121,049,097 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47118,062,267 - 118,070,004 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7107,705,925 - 107,713,664 (-)NCBICelera
RGSC_v3.17118,096,504 - 118,104,234 (-)NCBI
Cytogenetic Map7q34NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View
glioblastoma  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
alpha-pinene  (ISO)
amphetamine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (EXP,ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
copper(II) chloride  (ISO)
cyclosporin A  (ISO)
dicrotophos  (ISO)
dieldrin  (ISO)
dioxygen  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
folic acid  (ISO)
FR900359  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glyphosate  (EXP)
hydroquinone O-beta-D-glucopyranoside  (ISO)
inulin  (ISO)
iron dichloride  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methimazole  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (EXP)
nickel dichloride  (ISO)
nitrofen  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
poly(I:C)  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
selenomethionine  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (IBA)
heterochromatin  (IEA,ISO)
nuclear body  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)
PcG protein complex  (IEA,ISO)
PRC1 complex  (IBA)

Molecular Function

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. PRC1 complex diversity: where is it taking us? Gil J and O'Loghlen A, Trends Cell Biol. 2014 Jul 22. pii: S0962-8924(14)00102-0. doi: 10.1016/j.tcb.2014.06.005.
3. Altered expression of polycomb group genes in glioblastoma multiforme. Li G, etal., PLoS One. 2013 Nov 15;8(11):e80970. doi: 10.1371/journal.pone.0080970. eCollection 2013.
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put. Simon JA and Kingston RE, Mol Cell. 2013 Mar 7;49(5):808-24. doi: 10.1016/j.molcel.2013.02.013.
Additional References at PubMed
PMID:12477932   PMID:16537902   PMID:21282530  


Genomics

Comparative Map Data
Cbx6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87113,253,364 - 113,263,413 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7113,253,364 - 113,263,413 (-)EnsemblGRCr8
mRatBN7.27111,372,979 - 111,383,026 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7111,372,980 - 111,383,091 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7113,120,974 - 113,130,993 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07115,344,512 - 115,354,531 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07115,313,857 - 115,323,876 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07121,047,996 - 121,058,109 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7121,050,302 - 121,058,029 (-)Ensemblrn6Rnor6.0
Rnor_5.07121,038,955 - 121,049,097 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47118,062,267 - 118,070,004 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7107,705,925 - 107,713,664 (-)NCBICelera
RGSC_v3.17118,096,504 - 118,104,234 (-)NCBI
Cytogenetic Map7q34NCBI
CBX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382238,861,422 - 38,872,216 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2238,861,422 - 38,872,249 (-)Ensemblhg38GRCh38
GRCh372239,257,427 - 39,268,221 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362237,590,189 - 37,598,204 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342237,584,749 - 37,592,758NCBI
Celera2223,066,901 - 23,074,916 (-)NCBICelera
Cytogenetic Map22q13.1NCBI
HuRef2222,225,829 - 22,233,844 (-)NCBIHuRef
CHM1_12239,219,153 - 39,227,168 (-)NCBICHM1_1
T2T-CHM13v2.02239,331,798 - 39,342,593 (-)NCBIT2T-CHM13v2.0
Cbx6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391579,708,099 - 79,718,534 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1579,708,097 - 79,718,889 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381579,823,898 - 79,834,333 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1579,823,896 - 79,834,688 (-)Ensemblmm10GRCm38
MGSCv371579,654,328 - 79,664,763 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361579,651,153 - 79,661,588 (-)NCBIMGSCv36mm8
Celera1581,943,110 - 81,953,546 (-)NCBICelera
Cytogenetic Map15E1NCBI
cM Map1537.85NCBI
Cbx6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541324,955,721 - 24,966,973 (-)Ensembl
ChiLan1.0NW_00495541324,955,721 - 24,966,015 (-)NCBIChiLan1.0ChiLan1.0
CBX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22348,714,786 - 48,726,440 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12251,406,135 - 51,416,940 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02219,774,136 - 19,784,937 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12237,591,216 - 37,602,377 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2237,595,940 - 37,601,679 (-)EnsemblpanPan2panpan1.1
CBX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11025,967,305 - 25,973,489 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1025,967,300 - 25,988,497 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1025,917,598 - 25,928,682 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01026,752,750 - 26,763,369 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1026,752,754 - 26,791,762 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11026,474,793 - 26,485,867 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01026,785,642 - 26,796,695 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01026,961,989 - 26,973,063 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cbx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049459,511,714 - 9,521,968 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364922,521,553 - 2,532,516 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364922,522,126 - 2,532,382 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl59,180,684 - 9,188,620 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.159,180,559 - 9,191,414 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CBX6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11921,525,609 - 21,536,406 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1921,525,596 - 21,536,352 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666045104,221,484 - 104,232,319 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cbx6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247529,291,892 - 9,302,688 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247529,291,955 - 9,302,451 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Cbx6
30 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:317
Count of miRNA genes:176
Interacting mature miRNAs:218
Transcripts:ENSRNOT00000068033
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
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)792388565119280177Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)782111245123048330Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)773618702118618702Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)771621154114982716Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)785043242130043242Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)785497398130497398Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)783626689128626689Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)773557047118557047Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)782111245123048330Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)796700404118618702Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)749682832115766396Rat
10450862Kidm55Kidney mass QTL 554.9kidney mass (VT:0002707)kidney weight (CMO:0000081)772725037117725037Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
10450856Livw4Liver weight QTL 43.8liver mass (VT:0003402)liver weight (CMO:0000092)772725037117725037Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)749682832115766396Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)778682549123682549Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)749682832115766396Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)771621154119349044Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat

Markers in Region
BF400141  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27111,381,405 - 111,381,552 (+)MAPPERmRatBN7.2
Rnor_6.07121,056,423 - 121,056,569NCBIRnor6.0
Rnor_5.07121,047,382 - 121,047,528UniSTSRnor5.0
RGSC_v3.47118,068,398 - 118,068,544UniSTSRGSC3.4
Celera7107,712,056 - 107,712,202UniSTS
RH 3.4 Map7855.1UniSTS
Cytogenetic Map7q34UniSTS
AW252195  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27111,375,397 - 111,375,579 (+)MAPPERmRatBN7.2
Rnor_6.07121,050,415 - 121,050,596NCBIRnor6.0
Rnor_5.07121,041,374 - 121,041,555UniSTSRnor5.0
RGSC_v3.47118,062,390 - 118,062,571UniSTSRGSC3.4
Celera7107,706,048 - 107,706,229UniSTS
RH 3.4 Map7856.6UniSTS
Cytogenetic Map7q34UniSTS


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 67 164 91 90 59 91 59 6 355 191 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000068033   ⟹   ENSRNOP00000061325
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7113,253,364 - 113,263,413 (-)Ensembl
mRatBN7.2 Ensembl7111,375,263 - 111,383,091 (-)Ensembl
Rnor_6.0 Ensembl7121,050,302 - 121,058,029 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101445   ⟹   ENSRNOP00000077158
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7111,372,980 - 111,383,024 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000109862   ⟹   ENSRNOP00000093551
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7111,375,265 - 111,383,026 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000142227   ⟹   ENSRNOP00000104755
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7113,257,968 - 113,263,413 (-)Ensembl
RefSeq Acc Id: NM_001012119   ⟹   NP_001012119
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87113,253,364 - 113,263,413 (-)NCBI
mRatBN7.27111,372,979 - 111,383,026 (-)NCBI
Rnor_6.07121,050,292 - 121,058,029 (-)NCBI
Rnor_5.07121,038,955 - 121,049,097 (-)NCBI
RGSC_v3.47118,062,267 - 118,070,004 (-)RGD
Celera7107,705,925 - 107,713,664 (-)RGD
Sequence:
RefSeq Acc Id: NM_001401046   ⟹   NP_001387975
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87113,253,364 - 113,263,413 (-)NCBI
mRatBN7.27111,372,979 - 111,383,026 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001012119 (Get FASTA)   NCBI Sequence Viewer  
  NP_001387975 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH87122 (Get FASTA)   NCBI Sequence Viewer  
  EDM15778 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000061325
  ENSRNOP00000061325.3
  ENSRNOP00000104755.1
RefSeq Acc Id: NP_001012119   ⟸   NM_001012119
- Peptide Label: isoform 2
- UniProtKB: Q5M9G4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000061325   ⟸   ENSRNOT00000068033
Ensembl Acc Id: ENSRNOP00000077158   ⟸   ENSRNOT00000101445
Ensembl Acc Id: ENSRNOP00000093551   ⟸   ENSRNOT00000109862
RefSeq Acc Id: NP_001387975   ⟸   NM_001401046
- Peptide Label: isoform 1
- UniProtKB: A6HSU4 (UniProtKB/TrEMBL),   E9PT11 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000104755   ⟸   ENSRNOT00000142227
Protein Domains
Chromo

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PT11-F1-model_v2 AlphaFold E9PT11 1-396 view protein structure

Transcriptome

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

Promoters
RGD ID:13695489
Promoter ID:EPDNEW_R6014
Type:initiation region
Name:Cbx6_1
Description:chromobox 6
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_6.07121,058,043 - 121,058,103EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307314 AgrOrtholog
BioCyc Gene G2FUF-32742 BioCyc
Ensembl Genes ENSRNOG00000046955 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000068033 ENTREZGENE
  ENSRNOT00000068033.3 UniProtKB/TrEMBL
  ENSRNOT00000142227.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7108347 IMAGE-MGC_LOAD
InterPro CBX7_C UniProtKB/TrEMBL
  Chromo_dom_subgr UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
  Chromo_domain/shadow UniProtKB/TrEMBL
  Chromodomain-like UniProtKB/TrEMBL
  Chromodomain_CS UniProtKB/TrEMBL
  PcG_PRC1-like_component UniProtKB/TrEMBL
KEGG Report rno:315136 UniProtKB/TrEMBL
MGC_CLONE MGC:94814 IMAGE-MGC_LOAD
NCBI Gene 315136 ENTREZGENE
PANTHER CHROMOBOX PROTEIN HOMOLOG 6 UniProtKB/TrEMBL
  POLYCOMB GROUP PROTEIN PC UniProtKB/TrEMBL
Pfam CBX7_C UniProtKB/TrEMBL
  Chromo UniProtKB/TrEMBL
PhenoGen Cbx6 PhenoGen
PRINTS CHROMODOMAIN UniProtKB/TrEMBL
PROSITE CHROMO_1 UniProtKB/TrEMBL
  CHROMO_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000046955 RatGTEx
SMART CHROMO UniProtKB/TrEMBL
Superfamily-SCOP Chromodomain-like UniProtKB/TrEMBL
UniProt A0ABK0L504_RAT UniProtKB/TrEMBL
  A6HSU4 ENTREZGENE, UniProtKB/TrEMBL
  E9PT11 ENTREZGENE, UniProtKB/TrEMBL
  Q5M9G4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Cbx6  chromobox 6  Cbx6  chromobox homolog 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Cbx6  chromobox homolog 6  Cbx6_predicted  chromobox homolog 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Cbx6_predicted  chromobox homolog 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED