Cbx6 (chromobox 6) - Rat Genome Database

Name: Cbx6
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cbx6 (chromobox 6) Rattus norvegicus

Analyze

Symbol:

Cbx6

Name:

chromobox 6

RGD ID:

1307314

Description:

Predicted to enable 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 PcG protein complex. 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 Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CBX6 (chromobox 6)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Cbx6 (chromobox 6)	HGNC	NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Cbx6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CBX6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CBX6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cbx6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CBX6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CBX6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cbx6 (chromobox 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CBX6 (chromobox 6)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|sonicParanoid)
Mus musculus (house mouse):	Cbx6 (chromobox 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|sonicParanoid)
Danio rerio (zebrafish):	cbx6a (chromobox homolog 6a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	cbx6b (chromobox homolog 6b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|sonicParanoid)
Drosophila melanogaster (fruit fly):	Pc	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|sonicParanoid)
Caenorhabditis elegans (roundworm):	cec-6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	111,372,979 - 111,383,109 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	7	111,372,980 - 111,383,091 (-)	Ensembl
Rnor_6.0	7	121,047,996 - 121,058,109 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	121,050,302 - 121,058,029 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	121,038,955 - 121,049,097 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	118,062,267 - 118,070,004 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	118,096,504 - 118,104,234 (-)	NCBI
Celera	7	107,705,925 - 107,713,664 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

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)

2,2',4,4'-Tetrabromodiphenyl ether (EXP)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2-hydroxypropanoic acid (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

acrolein (ISO)

acrylamide (ISO)

alpha-pinene (ISO)

amphetamine (EXP)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

choline (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (EXP,ISO)

clofibric acid (EXP)

cobalt dichloride (ISO)

cyclosporin A (ISO)

dicrotophos (ISO)

dieldrin (ISO)

dioxygen (ISO)

endosulfan (EXP)

ethanol (ISO)

folic acid (ISO)

genistein (ISO)

gentamycin (EXP)

glyphosate (EXP)

hydroquinone O-beta-D-glucopyranoside (ISO)

L-methionine (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

N-nitrosodiethylamine (EXP)

nickel dichloride (ISO)

nitrofen (EXP)

ozone (ISO)

paracetamol (ISO)

poly(I:C) (EXP)

quercetin (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

selenomethionine (ISO)

silicon dioxide (ISO)

sulforaphane (ISO)

thioacetamide (EXP)

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

negative regulation of transcription by RNA polymerase II (ISO)

Cellular Component

heterochromatin (ISO)

nucleus (ISO)

PcG protein complex (ISO)

Molecular Function

protein binding (ISO)

single-stranded RNA binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

histone modification pathway (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	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.	Li G, etal., PLoS One. 2013 Nov 15;8(11):e80970. doi: 10.1371/journal.pone.0080970. eCollection 2013.
4.	RGD automated data pipeline
5.	RGD automated import pipeline for gene-chemical interactions
6.	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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	111,372,979 - 111,383,109 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	7	111,372,980 - 111,383,091 (-)	Ensembl
Rnor_6.0	7	121,047,996 - 121,058,109 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	121,050,302 - 121,058,029 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	121,038,955 - 121,049,097 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	118,062,267 - 118,070,004 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	7	118,096,504 - 118,104,234 (-)	NCBI
Celera	7	107,705,925 - 107,713,664 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

CBX6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	22	38,861,422 - 38,872,216 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	22	38,861,422 - 38,872,249 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	22	39,257,427 - 39,268,221 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	37,590,189 - 37,598,204 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	22	37,584,749 - 37,592,758	NCBI
Celera	22	23,066,901 - 23,074,916 (-)	NCBI
Cytogenetic Map	22	q13.1	NCBI
HuRef	22	22,225,829 - 22,233,844 (-)	NCBI		HuRef
CHM1_1	22	39,219,153 - 39,227,168 (-)	NCBI		CHM1_1

Cbx6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	79,708,099 - 79,718,534 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	15	79,708,097 - 79,718,889 (-)	Ensembl
GRCm38	15	79,823,898 - 79,834,333 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	79,823,896 - 79,834,688 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	79,654,328 - 79,664,763 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	15	79,651,153 - 79,661,588 (-)	NCBI			mm8
Celera	15	81,943,110 - 81,953,546 (-)	NCBI		Celera
Cytogenetic Map	15	E1	NCBI

Cbx6
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955413	24,955,721 - 24,966,973 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955413	24,955,721 - 24,966,015 (-)	NCBI	ChiLan1.0	ChiLan1.0

CBX6
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	22	37,591,216 - 37,602,377 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	37,595,940 - 37,601,679 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	22	19,774,136 - 19,784,937 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CBX6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	25,967,305 - 25,973,489 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	25,967,300 - 25,988,497 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	25,917,598 - 25,928,682 (+)	NCBI
ROS_Cfam_1.0	10	26,752,750 - 26,763,369 (+)	NCBI
ROS_Cfam_1.0 Ensembl	10	26,752,754 - 26,791,762 (+)	Ensembl
UMICH_Zoey_3.1	10	26,474,793 - 26,485,867 (+)	NCBI
UNSW_CanFamBas_1.0	10	26,785,642 - 26,796,695 (+)	NCBI
UU_Cfam_GSD_1.0	10	26,961,989 - 26,973,063 (+)	NCBI

Cbx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404945	9,511,714 - 9,521,968 (+)	NCBI
SpeTri2.0	NW_004936492	2,522,126 - 2,532,382 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CBX6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	9,180,675 - 9,188,652 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	9,180,559 - 9,191,414 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

CBX6
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	19	21,525,609 - 21,536,406 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	19	21,525,596 - 21,536,352 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666045	104,221,484 - 104,232,319 (+)	NCBI	Vero_WHO_p1.0

Cbx6
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624752	9,291,955 - 9,302,451 (+)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

BF400141

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	111,381,405 - 111,381,552 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	121,056,423 - 121,056,569	NCBI	Rnor6.0
Rnor_5.0	7	121,047,382 - 121,047,528	UniSTS	Rnor5.0
RGSC_v3.4	7	118,068,398 - 118,068,544	UniSTS	RGSC3.4
Celera	7	107,712,056 - 107,712,202	UniSTS
RH 3.4 Map	7	855.1	UniSTS
Cytogenetic Map	7	q34	UniSTS

AW252195

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	111,375,397 - 111,375,579 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	121,050,415 - 121,050,596	NCBI	Rnor6.0
Rnor_5.0	7	121,041,374 - 121,041,555	UniSTS	Rnor5.0
RGSC_v3.4	7	118,062,390 - 118,062,571	UniSTS	RGSC3.4
Celera	7	107,706,048 - 107,706,229	UniSTS
RH 3.4 Map	7	856.6	UniSTS
Cytogenetic Map	7	q34	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	924703	115097879	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	41333674	119109060	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	44421311	118198041	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	64002457	135012528	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	68938720	113886318	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	68938720	113886318	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	68938720	113886318	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	69736226	117455174	Rat
1357338	Stl17	Serum triglyceride level QTL 17	3.23		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	69736356	112729554	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	73829340	130221005	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	80221299	112308525	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	80221299	124373579	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	80221299	125221299	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	81737938	126737938	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	83153392	128153392	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	84257275	129257275	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	84257275	129257275	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	86983365	131983365	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	90482196	135012528	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	91281130	135012528	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	91412594	129807172	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	94811085	116738842	Rat
1357336	Gluco6	Glucose level QTL 6	3.4		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	7	94811326	116294265	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	96670164	135012528	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	102297359	133492884	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	103146217	116738842	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	104603555	135012528	Rat
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	106571501	135012528	Rat
631663	Bw6	Body weight QTL 6	3.4		body mass (VT:0001259)	body weight (CMO:0000012)	7	111075573	134976056	Rat
1300112	Bp183	Blood pressure QTL 183	3.51		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	7	111182207	135012528	Rat

miRNA Target Status

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.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	2	36	16	2	12	2	2	3	74	35	36	11	2
Low	1	7	41	39	7	39	6	8			5		6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001012119	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001401046	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006241994	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC128476	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC087122	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC168686	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000186	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000068033 ⟹ ENSRNOP00000061325

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	111,375,263 - 111,383,091 (-)	Ensembl
Rnor_6.0 Ensembl	7	121,050,302 - 121,058,029 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000101445 ⟹ ENSRNOP00000077158

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	111,372,980 - 111,383,024 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000109862 ⟹ ENSRNOP00000093551

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	111,375,265 - 111,383,026 (-)	Ensembl

RefSeq Acc Id:

NM_001012119 ⟹ NP_001012119

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	111,375,275 - 111,383,012 (-)	NCBI
Rnor_6.0	7	121,050,292 - 121,058,029 (-)	NCBI
Rnor_5.0	7	121,038,955 - 121,049,097 (-)	NCBI
RGSC_v3.4	7	118,062,267 - 118,070,004 (-)	RGD
Celera	7	107,705,925 - 107,713,664 (-)	RGD

Sequence:

show sequence

CCGCTGAGCAAGATGGAGCTGTCTGCAGTAGGCGAGTGGGTCTTCGCGGCCGAATCCATCATCA
AACGCCGGATCCGAAAGGGACGCATCGAGTACCTGGTGAAATGGAAAGGGTGGGCGATCAAGTA
CAGCACTTGGGAGCCAGAGGAGAACATTCTGGATTCGAGGCTCATCGCAGCCTTCGAGCAGAAG
GAAAGGGAACGTGAGCTGTATGGGCCCAAGAAGAGGGGACCTAAACCCAAAACTTTCCTCCTAA
AGCCAAGCGCCAGCGCCTCCTCGCCCAAGCTGCACTCCAGCGCTGCGGTGCACCGGCTCAAGAA
AGACATCCGCCGCTGCCACCGTATGTCCCGCCGCCCCCTGCCACGACCAGACCCACAAGGGGGT
AACCCTGGCCTGCGCCCACCCATCTCGCCCTTTTCTGAGACCGTGCGCATCATCAACCGCAAGG
TGAAGCCCCGGGAACCCAAGCGGAACCGCATCATCCTGAACCTGAAGGTGATTGACAAGGGCCC
GGGAGGTGGCAGCACTGCCCAGGGCACCGGGGCACTGGCCCGCCCGAAAGTCCCCTCGCGGAAC
CGGGTCATTGGGAAGAGCAAGAAGTTCAGCGAGAGCATGCTCCGCACCCAGATCCGCCACATGA
AGTTTGGCACCTTTGCACTCTACAAGCCCCCTCCCGCCCCTCTGGTGCCCTCTACTGCGGGCAA
AGCTGACGTGGCCTCCTCGGGGCCTGGGCTGCTCCTGGCCACCCCAGCTGCTGCCCCCTTTGAC
GCACACAGCTCTAGCTCTTCCGGCTGCCCCTCACCCACACTGCAGTCCTCTGACCCAGATGATG
CACCACCCAAGCTCCTCCCCGAGACCATAAGCCGATCTGCGTCCAACTGGCGAGAGTCAGAGGT
GCTCGATCTGTCCATCCCTCCTGAGGCAGCTGCCACCGGCCAGCGGGTGCCTCCTGATGTCACT
GCTGCTGCGGGCCAGGCGCTACACACAGTTCTGGAGGCCACAGGTACCGGCTCCTCCGAGCCTG
AGGCTGGGGACTGGCGCCCCGAGATGTCGCCATGCTCCAATGTAGTCGTCACAGATGTCACCAG
CAACCTCCTGACCGTGACCATCAAGGAATTCTGCAGCCCTGAGGATTTCGAGAAGGTGGCTGCT
GGGGTGGCAGGTGCTACAGGGGGTGGGGGTGGCACTGGGCCAAGTAAGTGAGGAGCTTCCTCAA
GGAGGGAGGCTTTGGGGGGCCTCCTTCCAGGAGTTGTACTTGTGCTCCCACCCTATCCCTGCCC
TCAGACCCGTATGCCTGTGCTTTGCTTGCCTCGAACGGCTCAGTGTTGACCCAGGGATGGTGCT
GGCAGTCCTGGACTTGGTCGGGGCCCTGGTAGGGCACAGGAAGGAAGCTCTGCTCCCTGGTGTC
CCTGCCACTGTCCCTGATTGTGCAGGTGGGGCCCACTAGGTGGTTTCTGGGGAATCCCCAGAAC
TTGGGGTTCACCTATCCTATCCACACCCCACCCTGCCTCTCCTAGCTTGCTTCTTGCTCTGTGT
GCAGTGTCTGGTCTCGGTGCTATCTTGGTATCTGCAGGGCCCCTAGGAGATCCCACCTAGGGCG
GGCACAGTCTCTTAGTACCACCTGGCACTGAGTGAAGGATGAGGCCAAAATGGGTCCCTCCCTC
GACACCATTGAGGGTGGTGGCAGCTGGGCCAGAGGTCCCCTCTCCTGCTTGCCTACATGTGGAC
CAGGCCCGTGCAGATCTCCTGCCCCACACACTGTCTCTATCCAAACCCCCCTTTGAAGGTGGAG
GGGCTGGCAGACATGGCACCGAGCCACAGCCTCTGGGCATCTGAAAACCCCTTCCGTCTTCTAC
CAAAGGTGCTGCAAGGACCTGCTGTAGAGGCTTCTGGCCGTGCATGTGTTTGCCCCTGGCCCAT
TCTTGTGTAGATCCATGTGTGTGTTGGGTGCAGGGCCTTAGCTCTCCCTGCAACACCCTTTACG
GTTCTCCTCAGAACAGGGTCGCTAAAGGCGTGGCCTCCGTTGCCTTAACCAGGCCTGGCACAGT
CCAGTCTGTGGTTTGTCGTGGAAGCCACAGGCCTCTCCAATCCCAGGTTGCTGGGGGATGTGGA
GCCCTCAGTCCCTTCTCGGGATGGTCCTCTTGAAGGTCAGACCTTCACTGCAGACATGGCGCAG
TAGGGACTGTGGCAGAGGAGGAGCCCAGCTGCAGCCTCTTGTTGCAGATGTTTGTGGAGGAAAG
AGGAGGCCCAGAGACCTCCCAGGGGTCTTCAGTTTCCCCCACTCCTCCCGTTTGCTTTTAACTG
CTGAGGCTTCCTAACAGTCTGGCCTGTTGGAAGACTTCGGGTGCCTTGGGCAGCTTCTACCTGC
CCTCTGCTGCTAGGGAACCGAGGCATCCATGCCAATGGCAGGCAGAGACCAAAGCCCCAGATTT
AGGCAGAGAGGGGAGAGAGGGTAGAAGTGTCTGTGTTCAAAAGAGAGGGAGGTGCCCATCCCCA
GGCAGCACTGGGAGTCCATTGGCCTACCCTTGGCCACTGCCTGGGAGTCACCTGGGTGTTGAAT
GGCATGTTCCTGTGTGTAGTCTGAGCTGGCTTCTGGTGTTCACAGCCTTTGGTACCTTGCTCAG
AAGCATGGGAAGAGGCAGGACCACGTGATCTAAGGACAAGTATTCTGGTCTTTGGGGAAGCTAC
TTCTCCTTACCATTCCCCTGCCAGGGTCTGCAGCACAGCCCCAGCCCCCTTGCCCCAGGGTATA
AAACAGGGGCTCTCACAGGGTTTGAGAGGGATACAGTCCGGTCCCACCCTGTCCTGTGTTAGCT
CCCATACCGTCCAAGTGCCAATTGGCTTTTCCCCCAAATAAGGGCTGGTATTTCGCCTCTGTCC
CCAGGGGCGATTTCCCCCTCCCCCTTCCCCAGGTGAGCCACCACCTGGGTGCCAGTTACAGGTG
TTTGCAGAGACCATAGAAATGTGTTTTCCTGAGAGTCTGTGTCATTTGTGACCTTTTTTTGTAA
AGAAGTTGTGTTTGCAGAGGCGATTTTATGACAGGAAAGTGAAAGAGTTAGTTTTGCAGAAAAA
AAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006241994 ⟹ XP_006242056

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	111,372,979 - 111,383,109 (-)	NCBI
Rnor_6.0	7	121,047,996 - 121,058,109 (-)	NCBI
Rnor_5.0	7	121,038,955 - 121,049,097 (-)	NCBI

Sequence:

show sequence

CGGGGGCCTGAGCGCTGGGGCGCGTGCGCGAGCGGTGCAGCACCGGCCGCGGGAGCAGGGAGTA
TTATGGGCTGTGGGTGCCGCTGAGCAAGATGGAGCTGTCTGCAGTAGGCGAGCGGGTCTTCGCG
GCCGAATCCATCATCAAACGCCGGATCCGAAAGGGACGCATCGAGTACCTGGTGAAATGGAAAG
GGTGGGCGATCAAGTACAGCACTTGGGAGCCAGAGGAGAACATTCTGGATTCGAGGCTCATCGC
AGCCTTCGAGCAGAAGGAAAGGGAACGTGAGCTGTATGGGCCCAAGAAGAGGGGACCTAAACCC
AAAACTTTCCTCCTAAAGGCCCGGGCCCAGGCGGAGGCCCTCCGCATCAGTGATGTGCATTTCT
CTGTCAAGCCAAGCGCCAGCGCCTCCTCGCCCAAGCTGCACTCCAGCGCTGCGGTGCACCGGCT
CAAGAAAGACATCCGCCGCTGCCACCGTATGTCCCGCCGCCCCCTGCCACGACCAGACCCACAA
GGGGGTAACCCTGGCCTGCGCCCACCCATCTCGCCCTTTTCTGAGACCGTGCGCATCATCAACC
GCAAGGTGAAGCCCCGGGAACCCAAGCGGAACCGCATCATCCTGAACCTGAAGGTGATTGACAA
GGGCCCGGGAGGTGGCAGCACTGCCCAGGGCACCGGGGCACTGGCCCGCCCGAAAGTCCCCTCG
CGGAACCGGGTCATTGGGAAGAGCAAGAAGTTCAGCGAGAGCATGCTCCGCACCCAGATCCGCC
ACATGAAGTTTGGCACCTTTGCACTCTACAAGCCCCCTCCCGCCCCTCTGGTGCCCTCTACTGC
GGGCAAAGCTGACGTGGCCTCCTCGGGGCCTGGGCTGCTCCTGGCCACCCCAGCTGCTGCCCCC
TTTGACGCACACAGCTCTAGCTCTTCCGGCTGCCCCTCACCCACACTGCAGTCCTCTGACCCAG
ATGATGCACCACCCAAGCTCCTCCCCGAGACCATAAGCCGATCTGCGTCCAACTGGCGAGAGTC
AGAGGTGCTCGATCTGTCCATCCCTCCTGAGGCAGCTGCCACCGGCCAGCGGGTGCCTCCTGAT
GTCACTGCTGCTGCGGGCCAGGCGCTACACACAGTTCTGGAGGCCACAGGTACCGGCTCCTCCG
AGCCTGAGGCTGGGGACTGGCGCCCCGAGATGTCGCCATGCTCCAATGTAGTCGTCACAGATGT
CACCAGCAACCTCCTGACCGTGACCATCAAGGAATTCTGCAGCCCTGAGGATTTCGAGAAGGTG
GCTGCTGGGGTGGCAGGTGCTACAGGGGGTGGGGGTGGCACTGGGCCAAGTAAGTGAGGAGCTT
CCTCAAGGAGGGAGGCTTTGGGGGGCCTCCTTCCAGGAGTTGTACTTGTGCTCCCACCCTATCC
CTGCCCTCAGACCCGTATGCCTGTGCTTTGCTTGCCTCGAACGGCTCAGTGTTGACCCAGGGAT
GGTGCTGGCAGTCCTGGACTTGGTCGGGGCCCTGGTAGGGCACAGGAAGGAAGCTCTGCTCCCT
GGTGTCCCTGCCACTGTCCCTGATTGTGCAGGTGGGGCCCACTAGGTGGTTTCTGGGGAATCCC
CAGAACTTGGGGTTCACCTATCCTATCCACACCCCACCCTGCCTCTCCTAGCTTGCTTCTTGCT
CTGTGTGCAGTGTCTGGTCTCGGTGCTATCTTGGTATCTGCAGGGCCCCTAGGAGATCCCACCT
AGGGCGGGCACAGTCTCTTAGTACCACCTGGCACTGAGTGAAGGATGAGGCCAAAATGGGTCCC
TCCCTCGACACCATTGAGGGTGGTGGCAGCTGGGCCAGAGGTCCCCTCTCCTGCTTGCCTACAT
GTGGACCAGGCCCGTGCAGATCTCCTGCCCCACACACTGTCTCTATCCAAACCCCCCTTTGAAG
GTGGAGGGGCTGGCAGACATGGCACCGAGCCACAGCCTCTGGGCATCTGAAAACCCCTTCCGTC
TTCTACCAAAGGTGCTGCAAGGACCTGCTGTAGAGGCTTCTGGCCGTGCATGTGTTTGCCCCTG
GCCCATTCTTGTGTAGATCCATGTGTGTGTTGGGTGCAGGGCCTTAGCTCTCCCTGCAACACCC
TTTACGGTTCTCCTCAGAACAGGGTCGCTAAAGGCGTGGCCTCCGTTGCCTTAACCAGGCCTGG
CACAGTCCAGTCTGTGGTTTGTCGTGGAAGCCACAGGCCTCTCCAATCCCAGGTTGCTGGGGGA
TGTGGAGCCCTCAGTCCCTTCTCGGGATGGTCCTCTTGAAGGTCAGACCTTCACTGCAGACATG
GCGCAGTAGGGACTGTGGCAGAGGAGGAGCCCAGCTGCAGCCTCTTGTTGCAGATGTTTGTGGA
GGAAAGAGGAGGCCCAGAGACCTCCCAGGGGTCTTCAGTTTCCCCCACTCCTCCCGTTTGCTTT
TAACTGCTGAGGCTTCCTAACAGTCTGGCCTGTTGGAAGACTTCGGGTGCCTTGGGCAGCTTCT
ACCTGCCCTCTGCTGCTAGGGAACCGAGGCATCCATGCCAATGGCAGGCAGAGACCAAAGCCCC
AGATTTAGGCAGAGAGGGGAGAGAGGGTAGAAGTGTCTGTGTTCAAAAGAGAGGGAGGTGCCCA
TCCCCAGGCAGCACTGGGAGTCCATTGGCCTACCCTTGGCCACTGCCTGGGAGTCACCTGGGTG
TTGAATGGCATGTTCCTGTGTGTAGTCTGAGCTGGCTTCTGGTGTTCACAGCCTTTGGTACCTT
GCTCAGAAGCATGGGAAGAGGCAGGACCACGTGATCTAAGGACAAGTATTCTGGTCTTTGGGGA
AGCTACTTCTCCTTACCATTCCCCTGCCAGGGTCTGCAGCACAGCCCCAGCCCCCTTGCCCCAG
GGTATAAAACAGGGGCTCTCACAGGGTTTGAGAGGGATACAGTCCGGTCCCACCCTGTCCTGTG
TTAGCTCCCATACCGTCCAAGTGCCAATTGGCTTTTCCCCCAAATAAGGGCTGGTATTTCGCCT
CTGTCCCCAGGGGCGATTTCCCCCTCCCCCTTCCCCAGGTGAGCCACCACCTGGGTGCCAGTTA
CAGGTGTTTGCAGAGACCATAGAAATGTGTTTTCCTGAGAGTCTGTGTCATTTGTGACCTTTTT
TTGTAAAGAAGTTGTGTTTGCAGAGGCGATTTTATGACAGGAAAGTGAAAGAGTTAGTTTTGCA
GAAAAAAAAGAAAAAAAAAGAAAAAAATTTTAAAAAGTAAAAAAAAAAGAAAGAAAAGAGAAAA
ATATTAAAAAAAAAACCATCATAGGACTCCTAAGAGTGCGAGGCTGGGGGGAGAAAGCTATTTA
AGAAGAACGTATCAACGCAGCGATTGCACAGGTGAGGTGGCAATGTTGGGGTGGGGTGGAGGCC
TGCGCTAGCCGGTGGGCTCCCTGGGATAGAAGGCACACAGAGGTGGTCACTGTCCTCCTTCCTT
GACAGCAGGCAGGATGAGTCTGTTGTGACTTAGGAGCATGCTTCCACTTGCTTGGAAGGATGGC
ACCAGTCCTAAGGTAACTTGCAGGAAGCTCGGGGGACAGGCAGGTGGCGGTAGTGGGCCTCGGA
GGGACCGACTCACTGTTGGTGCCTTTCCGCCGAAAGGCTTCCCCTCCGTGAGCTTTTGTCAGCT
CTCTGGGTCACGTGGTTCCCAGCAGCTCCACCGACACTCTAACGACCCAGGCGCCTTTGAGCAT
CCCTGGTTAGGAGGAGGGATGCAGGCTTCAGAAAGTGGCTGACGGAGTAATCTCCTCGCTCATG
CACAAGGCCTCAAGGTGCACGGACCCAGGGAAGATGTGGGCCCGCCAGCGAGCAGACCCCTTTC
CTCTCCTGAATGGTCAGGAGCAGGAGGCCCAGAGGCTGCACAGACTCCTACACAGCCCTGCACC
ATCAGCCTACTGCAGGCCCCTCCCCCACCCCTGCTGCTTTTCATTTGCCTACTTACCAAGCAGA
AGTTGCAGTCCCTGTTTGCTTTATTTTTGTATGTGAAATGACCCCCTCCCCCCTACAGGTCATG
CCTTGTAAGCGCATCCTTCCCACCCACTTGTCAGGAAACAGGAGTGGGTGAGTTCTGCGTCTTG
GGTTTTGAGACGGAGGGTTGGGACCCATCCCTCTTGTGGATCTTGCTCTGATCTCAGTCAGTCC
CTCTGTGAAAGGGCTGGACAAGGCAGTGAGGCCTCAGCACGAAGCACTCTGGGGCTTCCAGCTG
CCCAGCCTGAGCGAACCGAATGTGCCTCCCTCCCTGGCTTCAGTGGGAGCTGATGGGATGGAGG
GCGTTGTCTCATTTCAAAGGAGGCTGAACTACTTCACGGGAGTCTGGCTGGCAACTTCAGAGCC
CTGGCTGTCCTGGCTTTTAAAGGGAAAGGTGGGACTCTGGGGCTGGTGTAGGCTGGAGGGTTGT
CCCTAGCAGACACTAGGTCAGTCAAGGATGGGCTGGCCTGGTCTCTGGGGACCTGAGAGGGCAA
ACTCACCCCTTCTTACTTTAATGGTTTGTTGGGTTTTTCTTGGTTTTTATGTTTCTTGTTTCTC
TTTTTCTTCCTTTGTTTTGTTTTTTGCACTTCATGAATGGTGGAGCCCAGCCTGGTCAGCTCTA
CCCTTGGGTTCCAGTGCACTAGACCAAGGTAGCCTCTCTGGGGCTTCTATGGTTCAAGGACTCA
CTTTTTTAAAAGATAAGAGAAAATTTAAGGGTTTTAGTTTTGTTCTGTCTGCTTCTCTTCTTGG
TTCAGAAAGCCTAGAGAGTGTGGTTACCCCCTTCTGACAGACATTTGAGAAACAAAAACAGGTA
CCTGGTCAGGTGGGGGCTCGGGACCCCACTTCCCAGCCTACAGTTCCCTCCGTCCTTAAAGGAG
TCAGGGTTCCACTCCAGCTGATGCAGAGCACCAGTCATGTGATGGAACCAGAGGGTATGAAGGG
GCCAAGTGGTGGGGGTCAGACGCTGGGCACCCCTGGGCTGAGGGGAGGAAGCAGGCATCTTTTT
GTTGCTTTTAACTTAAAGACACAAAGGCCTAAAGAAATATGTATCTTATAATTTTTTTAATTTT
TAAGAAGCTCATTTGATGAACTGCACGAATGGATTCTATATATATATATATATAATATACGTAC
ATAGCTCTATATTTGGGGACGGGCACTGTCTCTTTTCTCTCGCATTTTAAAGATGAAGTGTCTT
TGCCTTTGTCTGTGGTTCAACCATCCAGCTCCCAGCTGGCTAAACTTTGCCTCCAGTGGTTAAC
GGCAGGAACGTACTAAAGCTGGCCAACGGAGGAAGGGGCGGGGCCTCAGTCTGCCCTGCCCCCT
GGGGAGGAGCTCCAGTGGGGAAGATAGCTTATTTTGGATGTGGGTTCGGTAGATCTGGGCCAGG
GGAGGGCGGGCTCGTGCTGATCACTCTGTCTTGTACGTTTTGTTCTGCTGCTCTTCAATATTGT
ATCGATGCCAGGAAAGGGGGTGAAACCTCCTTCACCCCCAAATAAATTGTCACATTCCGAAGCT
A

hide sequence

Protein Sequences


Protein RefSeqs	NP_001012119	(Get FASTA)	NCBI Sequence Viewer
	NP_001387975	(Get FASTA)	NCBI Sequence Viewer
	XP_006242056	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH87122	(Get FASTA)	NCBI Sequence Viewer
	EDM15778	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001012119 ⟸ NM_001012119

- Sequence:

show sequence

MELSAVGEWVFAAESIIKRRIRKGRIEYLVKWKGWAIKYSTWEPEENILDSRLIAAFEQKERER
ELYGPKKRGPKPKTFLLKPSASASSPKLHSSAAVHRLKKDIRRCHRMSRRPLPRPDPQGGNPGL
RPPISPFSETVRIINRKVKPREPKRNRIILNLKVIDKGPGGGSTAQGTGALARPKVPSRNRVIG
KSKKFSESMLRTQIRHMKFGTFALYKPPPAPLVPSTAGKADVASSGPGLLLATPAAAPFDAHSS
SSSGCPSPTLQSSDPDDAPPKLLPETISRSASNWRESEVLDLSIPPEAAATGQRVPPDVTAAAG
QALHTVLEATGTGSSEPEAGDWRPEMSPCSNVVVTDVTSNLLTVTIKEFCSPEDFEKVAAGVAG
ATGGGGGTGPSK

hide sequence

RefSeq Acc Id:

XP_006242056 ⟸ XM_006241994

- Peptide Label:

isoform X1

- Sequence:

show sequence

MELSAVGERVFAAESIIKRRIRKGRIEYLVKWKGWAIKYSTWEPEENILDSRLIAAFEQKERER
ELYGPKKRGPKPKTFLLKARAQAEALRISDVHFSVKPSASASSPKLHSSAAVHRLKKDIRRCHR
MSRRPLPRPDPQGGNPGLRPPISPFSETVRIINRKVKPREPKRNRIILNLKVIDKGPGGGSTAQ
GTGALARPKVPSRNRVIGKSKKFSESMLRTQIRHMKFGTFALYKPPPAPLVPSTAGKADVASSG
PGLLLATPAAAPFDAHSSSSSGCPSPTLQSSDPDDAPPKLLPETISRSASNWRESEVLDLSIPP
EAAATGQRVPPDVTAAAGQALHTVLEATGTGSSEPEAGDWRPEMSPCSNVVVTDVTSNLLTVTI
KEFCSPEDFEKVAAGVAGATGGGGGTGPSK

hide sequence

RefSeq Acc Id:

ENSRNOP00000061325 ⟸ ENSRNOT00000068033

RefSeq Acc Id:

ENSRNOP00000077158 ⟸ ENSRNOT00000101445

RefSeq Acc Id:

ENSRNOP00000093551 ⟸ ENSRNOT00000109862

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 Assembly	Chr	Position (strand)	Source
Rnor_6.0	7	121,058,043 - 121,058,103	EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)

ACI/EurMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN-Lx/CubMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BUF/N (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

DA/OlaHsd (2019)

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CSV

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

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CSV

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/Stm (2019)

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CSV

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE16/Stm (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/FarMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB10/IpcvMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF10A/StmMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/NRrrcMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MWF/Hsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHR/OlalpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WAG/RijCrl (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1307314	AgrOrtholog
BioCyc Gene	G2FUF-32742	BioCyc
Ensembl Genes	ENSRNOG00000046955	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000061325	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOP00000077158	ENTREZGENE
Ensembl Transcript	ENSRNOT00000068033	ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOT00000101445	ENTREZGENE
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
KEGG Report	rno:315136	UniProtKB/TrEMBL
MGC_CLONE	MGC:94814	IMAGE-MGC_LOAD
NCBI Gene	315136	ENTREZGENE
Pfam	CBX7_C	UniProtKB/TrEMBL
	Chromo	UniProtKB/TrEMBL
PhenoGen	Cbx6	PhenoGen
PRINTS	CHROMODOMAIN	UniProtKB/TrEMBL
PROSITE	CHROMO_1	UniProtKB/TrEMBL
	CHROMO_2	UniProtKB/TrEMBL
SMART	CHROMO	UniProtKB/TrEMBL
Superfamily-SCOP	Chromodomain-like	UniProtKB/TrEMBL
UniProt	E9PT11_RAT	UniProtKB/TrEMBL
	Q5M9G4_RAT	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

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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RGD Manual Annotations