Cbx1 (chromobox 1) - Rat Genome Database

Name: Cbx1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cbx1 (chromobox 1) Rattus norvegicus

Analyze

Symbol:

Cbx1

Name:

chromobox 1

RGD ID:

1310714

Description:

Predicted to enable several functions, including histone methyltransferase binding activity; identical protein binding activity; and methylated histone binding activity. Predicted to be involved in DNA damage response; chromatin organization; and negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of DNA-templated transcription. Predicted to be located in several cellular components, including chromocenter; chromosome; and pronucleus. Predicted to be part of pericentric heterochromatin. Predicted to colocalize with chromosome, telomeric region. Orthologous to human CBX1 (chromobox 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; alpha-hexachlorocyclohexane; bisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

chromobox homolog 1; chromobox homolog 1 (Drosophila HP1 beta); chromobox homolog 1 (HP1 beta homolog Drosophila ); chromobox homolog 1 (HP1 beta homolog Drosophila); chromobox protein homolog 1; LOC360609

RGD Orthologs

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):	CBX1 (chromobox 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Cbx1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Cbx1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CBX1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CBX1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cbx1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CBX1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CBX1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cbx1 (chromobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CBX1 (chromobox 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Cbx1 (chromobox 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	cbx1b (chromobox homolog 1b (HP1 beta homolog Drosophila))	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Danio rerio (zebrafish):	cbx1a (chromobox homolog 1a (HP1 beta homolog Drosophila))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	HP1b	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	HP1c	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	hpl-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Su(var)205	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OMA\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	cbx1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

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	10	81,770,307 - 81,789,981 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	10	81,770,342 - 81,791,096 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	10	86,718,002 - 86,737,691 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	10	86,216,048 - 86,235,741 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	10	81,608,645 - 81,628,335 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	10	84,656,698 - 84,677,112 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	84,669,914 - 84,675,741 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	84,449,614 - 84,470,027 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	85,544,537 - 85,564,903 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	10	85,539,437 - 85,578,851 (+)	NCBI
Celera	10	80,531,367 - 80,552,403 (+)	NCBI		Celera
Cytogenetic Map	10	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

prostate cancer (ISO)

Prostatic Neoplasms (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-catechin (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

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

2-methylcholine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

5-fluorouracil (ISO)

afimoxifene (ISO)

aflatoxin B1 (ISO)

Aflatoxin B2 alpha (ISO)

all-trans-retinoic acid (ISO)

alpha-hexachlorocyclohexane (EXP)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

caffeine (ISO)

CGP 52608 (ISO)

chlormequat chloride (EXP)

chlorpyrifos (ISO)

choline (ISO)

crocidolite asbestos (ISO)

cycloheximide (ISO)

D-mannitol (ISO)

dexamethasone (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

ethanol (ISO)

folic acid (ISO)

fulvestrant (ISO)

gentamycin (EXP)

indometacin (ISO)

inulin (ISO)

ketamine (EXP)

L-methionine (ISO)

lead diacetate (ISO)

lipopolysaccharide (ISO)

methamphetamine (ISO)

okadaic acid (ISO)

oxaliplatin (EXP)

paracetamol (EXP)

pentachlorophenol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

poly(I:C) (EXP)

raloxifene (ISO)

resveratrol (EXP)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenate (ISO)

sodium arsenite (EXP,ISO)

sunitinib (ISO)

temozolomide (ISO)

tetrachloromethane (EXP)

titanium dioxide (ISO)

topotecan (EXP)

trichloroethene (EXP)

troglitazone (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromatin organization (IBA)

DNA damage response (ISO)

negative regulation of DNA-templated transcription (ISO)

negative regulation of transcription by RNA polymerase II (IBA)

Cellular Component

chromatin (ISO)

chromocenter (ISO)

chromosome, centromeric region (ISO)

chromosome, telomeric region (ISO)

female pronucleus (ISO)

intracellular membrane-bounded organelle (ISO)

male pronucleus (ISO)

nuclear body (IEA,ISO)

nucleoplasm (ISO)

nucleus (ISO)

pericentric heterochromatin (IBA,ISO)

site of DNA damage (ISO)

spindle (ISO)

Molecular Function

chromatin binding (IBA)

DNA binding (ISO)

enzyme binding (ISO)

histone methyltransferase binding (ISO)

identical protein binding (ISO)

methylated histone binding (IBA)

molecular adaptor activity (ISO)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	GOA pipeline	RGD automated data pipeline
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	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.

Additional References at PubMed

PMID:8287692	PMID:10562550	PMID:10747027	PMID:11101528	PMID:11980720	PMID:15322135	PMID:15922569	PMID:15947784	PMID:16547356	PMID:16880268	PMID:17261847	PMID:19135898
PMID:19486527	PMID:21383955	PMID:22770845	PMID:22871113	PMID:24270157	PMID:27248496

Genomics

Comparative Map Data

Cbx1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	10	81,770,307 - 81,789,981 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	10	81,770,342 - 81,791,096 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	10	86,718,002 - 86,737,691 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	10	86,216,048 - 86,235,741 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	10	81,608,645 - 81,628,335 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	10	84,656,698 - 84,677,112 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	84,669,914 - 84,675,741 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	84,449,614 - 84,470,027 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	85,544,537 - 85,564,903 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	10	85,539,437 - 85,578,851 (+)	NCBI
Celera	10	80,531,367 - 80,552,403 (+)	NCBI		Celera
Cytogenetic Map	10	q31	NCBI

CBX1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	17	48,070,059 - 48,101,478 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	17	48,070,052 - 48,101,478 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	17	46,147,421 - 46,178,840 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	43,502,420 - 43,533,360 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	17	43,502,421 - 43,533,360	NCBI
Celera	17	42,600,238 - 42,633,237 (-)	NCBI		Celera
Cytogenetic Map	17	q21.32	NCBI
HuRef	17	41,515,771 - 41,548,743 (-)	NCBI		HuRef
CHM1_1	17	46,212,408 - 46,243,879 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	17	48,931,877 - 48,964,812 (-)	NCBI		T2T-CHM13v2.0

Cbx1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	96,679,506 - 96,699,808 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	11	96,679,953 - 96,699,466 (+)	Ensembl		GRCm39 Ensembl
GRCm38	11	96,788,680 - 96,808,982 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	96,789,127 - 96,808,640 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	96,650,450 - 96,669,954 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	11	96,605,249 - 96,624,730 (+)	NCBI		MGSCv36	mm8
Celera	11	106,447,917 - 106,455,791 (+)	NCBI		Celera
Cytogenetic Map	11	D	NCBI
cM Map	11	60.11	NCBI

Cbx1
(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_004955451	13,066,628 - 13,083,693 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955451	13,066,628 - 13,083,693 (+)	NCBI	ChiLan1.0	ChiLan1.0

CBX1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1	17	18,965,548 - 18,999,327 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	17	9,434,141 - 9,467,865 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	17	9,616,923 - 9,647,883 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

CBX1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	24,363,566 - 24,369,060 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	24,358,885 - 24,369,060 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	23,829,363 - 23,850,430 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	9	25,157,318 - 25,178,406 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	9	25,158,689 - 25,177,393 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	9	23,926,775 - 23,947,857 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	9	24,187,435 - 24,208,348 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	9	24,314,854 - 24,335,770 (-)	NCBI		UU_Cfam_GSD_1.0

Cbx1
(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_024405602	23,813,951 - 23,832,175 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936490	13,242,949 - 13,261,195 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936490	13,242,949 - 13,261,195 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CBX1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	24,315,518 - 24,351,052 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	24,319,104 - 24,351,057 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	24,219,822 - 24,248,118 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CBX1
(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	16	68,471,298 - 68,508,180 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666077	39,523,509 - 39,556,340 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Cbx1
(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_female_1.0 Ensembl	NW_004624795	4,667,765 - 4,689,898 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624795	4,667,765 - 4,689,881 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Cbx1
81 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	267
Count of miRNA genes:	172
Interacting mature miRNAs:	196
Transcripts:	ENSRNOT00000011665, ENSRNOT00000071236
Prediction methods:	Microtar, 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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6357896	96121100	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9658275	104670812	Rat
2301967	Cm73	Cardiac mass QTL 73	4.55		heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	10	14487011	89062041	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14487011	104060283	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14487011	107057807	Rat
1554317	Bmd4	Bone mineral density QTL 4	9.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	19816042	99406971	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22427500	90627625	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	26521957	98003205	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	26521957	98952741	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	29299504	107211142	Rat
2317042	Aia20	Adjuvant induced arthritis QTL 20	3.38		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	37565079	82565079	Rat
2317043	Aia7	Adjuvant induced arthritis QTL 7	3.82		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	37565079	82565079	Rat
1576308	Schws1	Schwannoma susceptibility QTL 1		0.0041	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	10	40035094	102359817	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
631552	Vetf2	Vascular elastic tissue fragility QTL 2	4.5	0.0002	aorta elastic tissue integrity trait (VT:0010556)	artery internal elastic lamina non-tumorous lesion count (CMO:0001913)	10	41142633	86142633	Rat
61463	Bp12	Blood pressure QTL 12	6.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	41333258	86333258	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	42045676	104670812	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	42323132	87323132	Rat
70198	BpQTLcluster9	Blood pressure QTL cluster 9	2.94		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	42323132	87323132	Rat
9589030	Epfw9	Epididymal fat weight QTL 9	19.24	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	10	44441699	89441699	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	44441699	89441699	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	44441699	89441699	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	45029650	95600334	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	47369470	92369470	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	50574707	95574707	Rat
70364	Bp72	Blood pressure QTL 72			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	51121100	96121100	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	51770177	107211142	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	51770177	107211142	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	51772940	96772940	Rat
631530	Tls3	T-lymphoma susceptibility QTL 3	0	0.0001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	10	51774612	95600334	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	51786282	91669536	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	53797385	107211142	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	53797494	98952626	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	54809292	99809292	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	57134272	102134272	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	57134272	102134272	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	57134272	102134272	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	57576521	102576521	Rat
2293698	Bss43	Bone structure and strength QTL 43	5.33	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	10	59209888	104209888	Rat
2306970	Anxrr22	Anxiety related response QTL 22	5.95		fear/anxiety-related behavior trait (VT:1000241)	number of periods of voluntary immobility (CMO:0001045)	10	61345276	98211570	Rat
6893336	Cm75	Cardiac mass QTL 75	0.1	0.87	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	61345276	99703528	Rat
1558643	Cm44	Cardiac mass QTL 44	4.8	0.0000368	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	61345276	99703528	Rat
61402	Niddm3	Non-insulin dependent diabetes mellitus QTL 3	4.58		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	61345413	82564856	Rat
2313103	Bss80	Bone structure and strength QTL 80	2	0.0001	tibia strength trait (VT:1000284)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	10	62057807	107057807	Rat
2313105	Bss79	Bone structure and strength QTL 79	1.8	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	10	62057807	107057807	Rat
61449	Ciaa2	CIA Autoantibody QTL 2	7.1		blood autoantibody amount (VT:0003725)	calculated serum anti-type 2 collagen antibody titer (CMO:0001279)	10	63221094	107211142	Rat
2298481	Eau9	Experimental allergic uveoretinitis QTL 9		0.0169	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	10	65927233	82565079	Rat
1357344	Bp249	Blood pressure QTL 249		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	66743655	98003205	Rat
2317029	Aia19	Adjuvant induced arthritis QTL 19	2.98		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	66978955	107211142	Rat
2317039	Aia6	Adjuvant induced arthritis QTL 6	4.31		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	66978955	107211142	Rat
10450498	Bp384	Blood pressure QTL 384		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	67750049	107211142	Rat
1642980	Bp300	Blood pressure QTL 300			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68383129	107211142	Rat
61396	Bp9	Blood pressure QTL 9	4.8	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68420376	107211142	Rat
2300172	Bmd57	Bone mineral density QTL 57	9.8	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	10	69738412	107211142	Rat
2293646	Bss25	Bone structure and strength QTL 25	10.96	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	10	69738412	107211142	Rat
2293663	Bss33	Bone structure and strength QTL 33	9.34	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	10	69738412	107211142	Rat
6893366	Bw106	Body weight QTL 106	0.3	0.47	body mass (VT:0001259)	body weight (CMO:0000012)	10	70199100	107211142	Rat
70193	Mcs7	Mammary carcinoma susceptibility QTL 7	2.38		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	10	72224939	107211142	Rat
2298548	Neuinf7	Neuroinflammation QTL 7	3.4		nervous system integrity trait (VT:0010566)	spinal cord RT1-B protein level (CMO:0002132)	10	72224939	107211142	Rat
2306793	Ean5	Experimental allergic neuritis QTL 5	4.7		nervous system integrity trait (VT:0010566)	IFNG-secreting splenocyte count (CMO:0002122)	10	72552416	93995749	Rat
12880053	Cm104	Cardiac mass QTL 104		0.009	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	10	73452992	83463334	Rat
1358188	Ept9	Estrogen-induced pituitary tumorigenesis QTL 9	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
2292617	Ept18	Estrogen-induced pituitary tumorigenesis QTL 18	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
12880050	Am10	Aortic mass QTL 10		0.016	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	10	74372084	84007272	Rat
1579919	Bp281	Blood pressure QTL 281		0.01	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	74372084	94965338	Rat
631537	Oia4	Oil induced arthritis QTL 4			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	75631887	87055282	Rat
2325836	Bp346	Blood pressure QTL 346		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	84007272	Rat
10450495	Bp383	Blood pressure QTL 383		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	94965338	Rat
2292438	Bp311	Blood pressure QTL 311			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	107211142	Rat
1302404	Cia27	Collagen induced arthritis QTL 27	2.6	0.0045	joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	10	76452683	107211142	Rat
4889492	Pancm2	Pancreatic morphology QTL 2	3.2		pancreatic beta cell morphology trait (VT:0005217)	ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)	10	76748906	107211142	Rat
724516	Uae17	Urinary albumin excretion QTL 17	3.6		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	10	78210622	85220348	Rat
1300107	Rf18	Renal function QTL 18	3.41		urine output (VT:0003620)	timed urine volume (CMO:0000260)	10	78775516	98279596	Rat
1358915	Stresp7	Stress response QTL 7	3.52		blood norepinephrine amount (VT:0005663)	plasma norepinephrine level (CMO:0001010)	10	78899655	87307728	Rat
634354	Rends3	Renal damage susceptibility QTL 3		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	10	79813789	85160854	Rat
631555	Bp134	Blood pressure QTL 134		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	80515287	91230079	Rat
6893357	Bw102	Body weight QTL 102	0.5	0.36	body mass (VT:0001259)	body weight (CMO:0000012)	10	80515287	101325465	Rat
2303589	Bw87	Body weight QTL 87	2		body mass (VT:0001259)	body weight (CMO:0000012)	10	81285008	107211142	Rat

Markers in Region

D10Rat191

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	81,754,637 - 81,754,852 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	84,641,030 - 84,641,244	NCBI	Rnor6.0
Rnor_5.0	10	84,433,945 - 84,434,159	UniSTS	Rnor5.0
RGSC_v3.4	10	85,528,819 - 85,529,034	RGD	RGSC3.4
RGSC_v3.4	10	85,528,820 - 85,529,034	UniSTS	RGSC3.4
RGSC_v3.1	10	85,543,189 - 85,543,404	RGD
Celera	10	80,515,717 - 80,515,931	UniSTS
FHH x ACI Map	10	67.0099	RGD
FHH x ACI Map	10	67.0099	UniSTS
Cytogenetic Map	10	q31	UniSTS

RH138099

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	81,780,663 - 81,780,886 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	84,667,055 - 84,667,277	NCBI	Rnor6.0
Rnor_5.0	10	84,459,970 - 84,460,192	UniSTS	Rnor5.0
RGSC_v3.4	10	85,554,846 - 85,555,068	UniSTS	RGSC3.4
Celera	10	80,542,346 - 80,542,568	UniSTS
RH 3.4 Map	10	769.8	UniSTS
Cytogenetic Map	10	q31	UniSTS

Cbx1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	81,785,461 - 81,785,638 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	84,671,853 - 84,672,028	NCBI	Rnor6.0
Rnor_5.0	10	84,464,768 - 84,464,943	UniSTS	Rnor5.0
RGSC_v3.4	10	85,559,644 - 85,559,819	UniSTS	RGSC3.4
Celera	10	80,547,144 - 80,547,319	UniSTS
Cytogenetic Map	10	q31	UniSTS

RH135339

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	81,790,447 - 81,790,652 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	84,676,837 - 84,677,041	NCBI	Rnor6.0
Rnor_5.0	10	84,469,752 - 84,469,956	UniSTS	Rnor5.0
RGSC_v3.4	10	85,564,628 - 85,564,832	UniSTS	RGSC3.4
Celera	10	80,552,128 - 80,552,332	UniSTS
RH 3.4 Map	10	779.9	UniSTS
Cytogenetic Map	10	q31	UniSTS

RH141272

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	81,790,843 - 81,791,035 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	84,677,233 - 84,677,424	NCBI	Rnor6.0
Rnor_5.0	10	84,470,148 - 84,470,339	UniSTS	Rnor5.0
RGSC_v3.4	10	85,565,024 - 85,565,215	UniSTS	RGSC3.4
Celera	10	80,552,524 - 80,552,715	UniSTS
RH 3.4 Map	10	780.7	UniSTS
Cytogenetic Map	10	q31	UniSTS

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	3	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001398806	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006220821	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006220822	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006220823	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006247233	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006247234	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC136178	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210943	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000011665 ⟹ ENSRNOP00000011665

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	81,770,342 - 81,790,792 (+)	Ensembl
Rnor_6.0 Ensembl	10	84,669,914 - 84,675,741 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000094691 ⟹ ENSRNOP00000078867

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	81,770,342 - 81,791,096 (+)	Ensembl

RefSeq Acc Id:

NM_001398806 ⟹ NP_001385735

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	81,770,309 - 81,789,981 (+)	NCBI

RefSeq Acc Id:

XM_006247233 ⟹ XP_006247295

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	81,770,307 - 81,789,981 (+)	NCBI
Rnor_6.0	10	84,656,698 - 84,677,112 (+)	NCBI
Rnor_5.0	10	84,449,614 - 84,470,027 (+)	NCBI

Sequence:

show sequence

GCGTCTGCGCAGTGCAGGCGGCGGGCCGCGCAGAGTGAGAATCTCTTTTGTTCGGCTGAGGGGA
GGGCCGTTGGCCGGGCCTGCGGTACGCCGCTTCATCTGGACGACCGACTTGAGGCCACACGGCT
GTTTGCTCCTCTGGGTGCTACTCCCTGGGACCGCCTGACGCAACGCGCAAGAAGCGCGACACCG
ATTCCTCTCGGACTGTCGGGCGCTGCTACGAGCAGTGTCACCCTTCACACCAGAAAGCTGGCGG
GTACTATGGGGAAAAAGCAAAACAAAAAGAAAGTGGAAGAGGTACTAGAAGAAGAGGAAGAGGA
ATATGTGGTGGAAAAAGTTCTTGATCGGCGAGTTGTCAAGGGCAAGGTGGAATATCTTCTAAAG
TGGAAAGGTTTCTCAGATGAGGACAACACTTGGGAGCCAGAAGAGAATCTGGATTGCCCTGACC
TTATTGCTGAGTTTCTACAGTCCCAGAAGACAGCTCATGAGACGGATAAATCAGACGGAGGCAA
GCGCAAAGCTGATTCTGATTCTGAAGATAAAGGAGAGGAAAGCAAACCAAAGAAGAAGAAAGAA
GAGGCTCTACCCATCTGGTTTTTACAGTCAGAAAAGCCACGAGGCTTTGCCCGGGGTCTGGAGC
CAGAGCGGATTATTGGAGCTACTGACTCCAGTGGAGAGCTCATGTTCCTGATGAAATGGAAAAA
CTCTGATGAGGCTGACCTGGTCCCTGCCAAGGAAGCCAATGTCAAGTGCCCACAGGTTGTCATA
TCCTTCTATGAGGAAAGGCTAACGTGGCATTCCTACCCCTCAGAGGATGATGACAAAAAAGACG
ACAAGAATTAGCCCTGTTGAGTACCAGCCCCTGTCACCTCTGACTGTGGGTTTCCAGGGGGAGG
GAAGGAGCTGTACTTGTCTTGACACCATTGAGGTGGCTTGAGAAGATGTCCTTTGAAGAGCCAG
CATAGTTTCTGTGTCCTGCAGCAGCCCAAGTGCTTTAAATTGTTCACACTGTATAGTTTGCACA
CCCATCCCAGGGGAGGGGAAAGGGTAAGTGTTTCAAGGCTCTGTTCTGCGCTTTACTAAGGAAG
GAACAGGCCTTCCATGGAGGACAGAACCCGCAGAACTGGGATGTGGGAAAGCAAAGATACTGTC
GATCTTCAAAGAGCATCTCCACAACCCACTGCCTTCTTCCCAATAGTGTTAACTGCATTTTTAC
AGCCTAGCATGTGTGTAGTTTTTTGGCTATTACTGGTATATTAATTGGGGGTGGGAGGGTTGGG
GCAGGGAGGAAGGGAGATGGGTAGAATCATTTTGATTAAAATTTGGAGCCTGATTGGGGAAATG
GTGAAACAGTAGAACAGTTAACTAATAAATTGGTTCTATGTCCAGAATATTTTGCCTTTTCAAA
AAATTGTCATTGGCACCATAAATAAGGACTATGAGAGACTGTTTAAAAAAAAAAAAAAGAAAAG
TCTGTTAATCCTAAAACCTACAGCCAAGGTGCTCCCAACCTGAGCTCAAAGTAGCCCACAAAGG
ACAAAGCCAGTTCTGAGTTACCAAAGCTGCCATTTGATGATGGAAACTGACTGGAGAGGGAAAG
TTTATTGGAGAGTATTAGAGGCAGACCACTCTGCCTCAGAGGTGCTAATTCTTGAAATTGGAGA
AAACCTTTTCCAATTACAAAGTTATAAATATCAGTTTGTCCGTCTAAGCCATTGGCTCAAGTAT
TGCAGGAGGGCCTATGGGAGATGGAGGAGGGGAGCCTCTGCTCTGGGGGCAAACTCTTGGAGCC
CCTCTCGCTTTTTCTTTTTTTTTTTTTCTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTATTTT
GTTTTTTCAGCTTTGAACCCTGAAACTGCTTGTGGCAGGTTCAGTTACTGACAGCACAAATTCC
ATTGAGTCTATTCAAGGATTGAATGACTTCACAAGCCCTGGTCTCAGGAGATTAACTTTCATAT
TGGGGTAGTGGTTCACTTGAGAATACAAAATCTTCAGATTAACTGATGTCCAAAATACTGTCTT
AAATCATGAGATCCATCAATTTTTAGTATTGTCTAGACCTGCAAATAGAATTACATTGTAAAAT
CTTTTTCAGCATGTGTTAAGATGTATGTGAAATTTTTTTGTTTAAGTGTAAACTTCATACCATA
CTGTCAGTTTTTGTCTTAATAAAATTATAGATTTCTAA

hide sequence

RefSeq Acc Id:

XM_006247234 ⟹ XP_006247296

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	81,780,158 - 81,789,981 (+)	NCBI
Rnor_6.0	10	84,666,344 - 84,677,112 (+)	NCBI
Rnor_5.0	10	84,449,614 - 84,470,027 (+)	NCBI

Sequence:

show sequence

AAAGGCCATACTGCCCCTCCCCCCCAATCAGATGTGTACCAGGCTGGAAGCCCTATGCTTGTTT
GTTTGCTTCTAAATGCTTGCCTGAAACTGCACTCAGGGTTCCACCTTCCTGTTGGCAGGGAGCT
CAAGCTTGTAATAGAGAGACCCTAATGCAATTGCTTCAGAACTGGCTCCTTGGTGGTCTTTTGG
GGTTCCCGTCACAACAGAAGTACATATACATGCTGCAGTGTCACCCTTCACACCAGAAAGCTGG
CGGGTACTATGGGGAAAAAGCAAAACAAAAAGAAAGTGGAAGAGGTACTAGAAGAAGAGGAAGA
GGAATATGTGGTGGAAAAAGTTCTTGATCGGCGAGTTGTCAAGGGCAAGGTGGAATATCTTCTA
AAGTGGAAAGGTTTCTCAGATGAGGACAACACTTGGGAGCCAGAAGAGAATCTGGATTGCCCTG
ACCTTATTGCTGAGTTTCTACAGTCCCAGAAGACAGCTCATGAGACGGATAAATCAGACGGAGG
CAAGCGCAAAGCTGATTCTGATTCTGAAGATAAAGGAGAGGAAAGCAAACCAAAGAAGAAGAAA
GAAGAGGCTCTACCCATCTGGTTTTTACAGTCAGAAAAGCCACGAGGCTTTGCCCGGGGTCTGG
AGCCAGAGCGGATTATTGGAGCTACTGACTCCAGTGGAGAGCTCATGTTCCTGATGAAATGGAA
AAACTCTGATGAGGCTGACCTGGTCCCTGCCAAGGAAGCCAATGTCAAGTGCCCACAGGTTGTC
ATATCCTTCTATGAGGAAAGGCTAACGTGGCATTCCTACCCCTCAGAGGATGATGACAAAAAAG
ACGACAAGAATTAGCCCTGTTGAGTACCAGCCCCTGTCACCTCTGACTGTGGGTTTCCAGGGGG
AGGGAAGGAGCTGTACTTGTCTTGACACCATTGAGGTGGCTTGAGAAGATGTCCTTTGAAGAGC
CAGCATAGTTTCTGTGTCCTGCAGCAGCCCAAGTGCTTTAAATTGTTCACACTGTATAGTTTGC
ACACCCATCCCAGGGGAGGGGAAAGGGTAAGTGTTTCAAGGCTCTGTTCTGCGCTTTACTAAGG
AAGGAACAGGCCTTCCATGGAGGACAGAACCCGCAGAACTGGGATGTGGGAAAGCAAAGATACT
GTCGATCTTCAAAGAGCATCTCCACAACCCACTGCCTTCTTCCCAATAGTGTTAACTGCATTTT
TACAGCCTAGCATGTGTGTAGTTTTTTGGCTATTACTGGTATATTAATTGGGGGTGGGAGGGTT
GGGGCAGGGAGGAAGGGAGATGGGTAGAATCATTTTGATTAAAATTTGGAGCCTGATTGGGGAA
ATGGTGAAACAGTAGAACAGTTAACTAATAAATTGGTTCTATGTCCAGAATATTTTGCCTTTTC
AAAAAATTGTCATTGGCACCATAAATAAGGACTATGAGAGACTGTTTAAAAAAAAAAAAAAGAA
AAGTCTGTTAATCCTAAAACCTACAGCCAAGGTGCTCCCAACCTGAGCTCAAAGTAGCCCACAA
AGGACAAAGCCAGTTCTGAGTTACCAAAGCTGCCATTTGATGATGGAAACTGACTGGAGAGGGA
AAGTTTATTGGAGAGTATTAGAGGCAGACCACTCTGCCTCAGAGGTGCTAATTCTTGAAATTGG
AGAAAACCTTTTCCAATTACAAAGTTATAAATATCAGTTTGTCCGTCTAAGCCATTGGCTCAAG
TATTGCAGGAGGGCCTATGGGAGATGGAGGAGGGGAGCCTCTGCTCTGGGGGCAAACTCTTGGA
GCCCCTCTCGCTTTTTCTTTTTTTTTTTTTCTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTAT
TTTGTTTTTTCAGCTTTGAACCCTGAAACTGCTTGTGGCAGGTTCAGTTACTGACAGCACAAAT
TCCATTGAGTCTATTCAAGGATTGAATGACTTCACAAGCCCTGGTCTCAGGAGATTAACTTTCA
TATTGGGGTAGTGGTTCACTTGAGAATACAAAATCTTCAGATTAACTGATGTCCAAAATACTGT
CTTAAATCATGAGATCCATCAATTTTTAGTATTGTCTAGACCTGCAAATAGAATTACATTGTAA
AATCTTTTTCAGCATGTGTTAAGATGTATGTGAAATTTTTTTGTTTAAGTGTAAACTTCATACC
ATACTGTCAGTTTTTGTCTTAATAAAATTATAGATTTCTAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001385735	(Get FASTA)	NCBI Sequence Viewer
	XP_006247295	(Get FASTA)	NCBI Sequence Viewer
	XP_006247296	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM05818	(Get FASTA)	NCBI Sequence Viewer
	EDM05819	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_006247295 ⟸ XM_006247233
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5ZM96 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGKKQNKKKVEEVLEEEEEEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLI AEFLQSQKTAHETDKSDGGKRKADSDSEDKGEESKPKKKKEEALPIWFLQSEKPRGFARGLEPE RIIGATDSSGELMFLMKWKNSDEADLVPAKEANVKCPQVVISFYEERLTWHSYPSEDDDKKDDK N hide sequence

RefSeq Acc Id:	XP_006247296 ⟸ XM_006247234
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5ZM96 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGKKQNKKKVEEVLEEEEEEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLI AEFLQSQKTAHETDKSDGGKRKADSDSEDKGEESKPKKKKEEALPIWFLQSEKPRGFARGLEPE RIIGATDSSGELMFLMKWKNSDEADLVPAKEANVKCPQVVISFYEERLTWHSYPSEDDDKKDDK N hide sequence

RefSeq Acc Id:

ENSRNOP00000011665 ⟸ ENSRNOT00000011665

RefSeq Acc Id:

ENSRNOP00000078867 ⟸ ENSRNOT00000094691

RefSeq Acc Id:	NP_001385735 ⟸ NM_001398806
- UniProtKB:	A6HIG4 (UniProtKB/TrEMBL)

Protein Domains

Chromo

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A3T3-F1-model_v2	AlphaFold	D4A3T3	1-185	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310714	AgrOrtholog
BioCyc Gene	G2FUF-23480	BioCyc
Ensembl Genes	ENSRNOG00000008689	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000011665.3	UniProtKB/TrEMBL
	ENSRNOP00000078867	ENTREZGENE
	ENSRNOP00000078867.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000011665.5	UniProtKB/TrEMBL
	ENSRNOT00000094691	ENTREZGENE
	ENSRNOT00000094691.1	UniProtKB/TrEMBL
Gene3D-CATH	2.40.50.40	UniProtKB/TrEMBL
InterPro	Chromo_dom_subgr	UniProtKB/TrEMBL
	Chromo_domain	UniProtKB/TrEMBL
	Chromo_domain/shadow	UniProtKB/TrEMBL
	Chromo_shadow_dom	UniProtKB/TrEMBL
	Chromodomain-like	UniProtKB/TrEMBL
	Chromodomain_CS	UniProtKB/TrEMBL
KEGG Report	rno:360609	UniProtKB/TrEMBL
NCBI Gene	360609	ENTREZGENE
PANTHER	CHROMOBOX PROTEIN	UniProtKB/TrEMBL
	CHROMOBOX PROTEIN HOMOLOG 1	UniProtKB/TrEMBL
Pfam	Chromo	UniProtKB/TrEMBL
	Chromo_shadow	UniProtKB/TrEMBL
PhenoGen	Cbx1	PhenoGen
PRINTS	CHROMODOMAIN	UniProtKB/TrEMBL
PROSITE	CHROMO_1	UniProtKB/TrEMBL
	CHROMO_2	UniProtKB/TrEMBL
SMART	CHROMO	UniProtKB/TrEMBL
	ChSh	UniProtKB/TrEMBL
Superfamily-SCOP	Chromodomain-like	UniProtKB/TrEMBL
UniProt	A0A8I5ZM96	ENTREZGENE, UniProtKB/TrEMBL
	A6HIG4	ENTREZGENE, UniProtKB/TrEMBL
	D4A3T3_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-12-02	Cbx1	chromobox 1	Cbx1	chromobox homolog 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-13	Cbx1	chromobox homolog 1	Cbx1	chromobox homolog 1 (HP1 beta homolog Drosophila )	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-08-29	Cbx1	chromobox homolog 1 (HP1 beta homolog Drosophila )	Cbx1	chromobox homolog 1 (Drosophila HP1 beta)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Cbx1	chromobox homolog 1 (Drosophila HP1 beta)	Cbx1_predicted	chromobox homolog 1 (Drosophila HP1 beta) (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Cbx1_predicted	chromobox homolog 1 (Drosophila HP1 beta) (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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Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD