Cbx7 (chromobox 7) - Rat Genome Database
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Gene: Cbx7 (chromobox 7) Rattus norvegicus
Analyze
Symbol: Cbx7
Name: chromobox 7
RGD ID: 735027
Description: Predicted to have chromatin binding activity; methylated histone binding activity; and single-stranded RNA binding activity. Involved in developmental process involved in reproduction; positive regulation of transcription elongation from RNA polymerase II promoter; and response to drug. Localizes to nucleus. Human ortholog(s) of this gene implicated in breast cancer; multiple myeloma; and myeloid leukemia. Orthologous to human CBX7 (chromobox 7); PARTICIPATES IN histone modification pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: chromobox homolog 7; chromobox protein homolog 7
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27111,460,656 - 111,479,231 (-)NCBI
Rnor_6.0 Ensembl7121,136,058 - 121,153,383 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07121,136,067 - 121,153,503 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07121,126,405 - 121,144,401 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47118,148,413 - 118,165,701 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17118,182,643 - 118,199,931 (-)NCBI
Celera7107,790,484 - 107,807,779 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (ISO)
cytosol  (IEA,ISO)
heterochromatin  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IDA,ISO)
PcG protein complex  (ISO,ISS)
PRC1 complex  (ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Cheng MC, etal., Int J Neuropsychopharmacol. 2007 Sep 17;:1-10.
2. Chubb D, etal., Nat Genet. 2013 Oct;45(10):1221-5. doi: 10.1038/ng.2733. Epub 2013 Aug 18.
3. Crea F, etal., Epigenomics. 2015 Aug;7(5):757-65. doi: 10.2217/epi.15.35. Epub 2015 Sep 7.
4. Federico A, etal., Cancer Res. 2009 Sep 1;69(17):7079-87. doi: 10.1158/0008-5472.CAN-09-1542. Epub 2009 Aug 25.
5. Forzati F, etal., J Clin Invest. 2012 Feb 1;122(2):612-23. doi: 10.1172/JCI58620. Epub 2012 Jan 3.
6. 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.
7. Gil J, etal., Nat Cell Biol 2004 Jan;6(1):67-72. Epub 2003 Nov 30.
8. Guan ZP, etal., Zhonghua Yu Fang Yi Xue Za Zhi. 2011 Jul;45(7):597-600.
9. Hinz S, etal., Tumour Biol. 2008;29(5):323-9. doi: 10.1159/000170879. Epub 2008 Nov 5.
10. Karamitopoulou E, etal., Eur J Cancer. 2010 May;46(8):1438-44. doi: 10.1016/j.ejca.2010.01.033. Epub 2010 Feb 23.
11. Kim HY, etal., FASEB J. 2015 Jan;29(1):300-13. doi: 10.1096/fj.14-253997. Epub 2014 Oct 28.
12. Klauke K, etal., Stem Cell Reports. 2015 Jan 13;4(1):74-89. doi: 10.1016/j.stemcr.2014.10.012. Epub 2014 Nov 26.
13. Li G, etal., PLoS One. 2013 Nov 15;8(11):e80970. doi: 10.1371/journal.pone.0080970. eCollection 2013.
14. Lomniczi A, etal., Nat Neurosci. 2013 Mar;16(3):281-9. doi: 10.1038/nn.3319. Epub 2013 Jan 27.
15. Mansueto G, etal., Genes Cancer. 2010 Mar;1(3):210-24. doi: 10.1177/1947601910366860.
16. MGD data from the GO Consortium
17. Monaco M, etal., Eur Thyroid J. 2014 Dec;3(4):211-6. doi: 10.1159/000367989. Epub 2014 Oct 15.
18. Pallante P, etal., Cancer Res. 2008 Aug 15;68(16):6770-8. doi: 10.1158/0008-5472.CAN-08-0695.
19. RGD automated data pipeline
20. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. RGD automated import pipeline for gene-chemical interactions
22. RGD comprehensive gene curation
23. Scott CL, etal., Proc Natl Acad Sci U S A. 2007 Mar 27;104(13):5389-94. Epub 2007 Mar 20.
24. Shinjo K, etal., Int J Cancer. 2014 Jul 15;135(2):308-18. doi: 10.1002/ijc.28692. Epub 2014 Jan 10.
25. Simon JA and Kingston RE, Mol Cell. 2013 Mar 7;49(5):808-24. doi: 10.1016/j.molcel.2013.02.013.
26. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
27. Zhang XW, etal., J Exp Clin Cancer Res. 2010 Aug 19;29:114. doi: 10.1186/1756-9966-29-114.
Additional References at PubMed
PMID:15489334   PMID:16537902   PMID:19636380   PMID:21282530   PMID:22056776   PMID:23870131  


Genomics

Comparative Map Data
Cbx7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27111,460,656 - 111,479,231 (-)NCBI
Rnor_6.0 Ensembl7121,136,058 - 121,153,383 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07121,136,067 - 121,153,503 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07121,126,405 - 121,144,401 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47118,148,413 - 118,165,701 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17118,182,643 - 118,199,931 (-)NCBI
Celera7107,790,484 - 107,807,779 (-)NCBICelera
Cytogenetic Map7q34NCBI
CBX7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2239,120,167 - 39,152,680 (-)EnsemblGRCh38hg38GRCh38
GRCh382239,130,772 - 39,152,680 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372239,526,777 - 39,548,685 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362237,856,723 - 37,878,484 (-)NCBINCBI36hg18NCBI36
Build 342237,851,280 - 37,873,038NCBI
Celera2223,328,820 - 23,350,581 (-)NCBI
Cytogenetic Map22q13.1NCBI
HuRef2222,493,890 - 22,515,575 (-)NCBIHuRef
CHM1_12239,485,611 - 39,507,403 (-)NCBICHM1_1
Cbx7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391579,800,005 - 79,855,344 (-)NCBIGRCm39mm39
GRCm39 Ensembl1579,800,008 - 79,855,320 (-)Ensembl
GRCm381579,915,804 - 79,971,143 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1579,915,807 - 79,971,119 (-)EnsemblGRCm38mm10GRCm38
MGSCv371579,746,237 - 79,763,076 (-)NCBIGRCm37mm9NCBIm37
MGSCv361579,740,244 - 79,759,866 (-)NCBImm8
Celera1582,033,986 - 82,050,640 (-)NCBICelera
Cytogenetic Map15E1NCBI
cM Map1537.85NCBI
Cbx7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541325,086,186 - 25,100,039 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541325,079,627 - 25,100,039 (-)NCBIChiLan1.0ChiLan1.0
CBX7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12237,854,049 - 37,876,861 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2237,854,056 - 37,876,084 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02220,037,529 - 20,059,459 (-)NCBIMhudiblu_PPA_v0panPan3
CBX7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1025,876,016 - 25,893,501 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11025,876,022 - 25,896,284 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cbx7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364922,411,171 - 2,428,484 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBX7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.159,070,312 - 9,090,467 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.256,355,114 - 6,372,426 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CBX7
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11921,776,618 - 21,798,525 (-)NCBI
ChlSab1.1 Ensembl1921,775,931 - 21,798,309 (-)Ensembl
Cbx7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247529,133,587 - 9,151,216 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)748118835128611831Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)750704769128085642Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)755072862123602998Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)755072862123602998Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)755072862123602998Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)777428105127748511Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)777428234122421148Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)785595369130595369Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)788365265121986709Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)788365265133365265Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)788365265134673427Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)791018361136018361Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)793726906138726906Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)793726906138726906Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)7103815550126525386Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)7103867802126080176Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7112429186126525386Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:298
Count of miRNA genes:198
Interacting mature miRNAs:222
Transcripts:ENSRNOT00000022631
Prediction methods:Miranda, Rnahybrid
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 3 4 7 14 2 17 18 12 10
Low 39 50 41 5 41 8 9 57 17 29 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022631   ⟹   ENSRNOP00000022631
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7121,136,067 - 121,153,383 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077731   ⟹   ENSRNOP00000074584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7121,136,058 - 121,153,231 (-)Ensembl
RefSeq Acc Id: NM_199117   ⟹   NP_954548
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,460,656 - 111,477,973 (-)NCBI
Rnor_6.07121,136,067 - 121,153,383 (-)NCBI
Rnor_5.07121,126,405 - 121,144,401 (-)NCBI
RGSC_v3.47118,148,413 - 118,165,701 (-)RGD
Celera7107,790,484 - 107,807,779 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242020   ⟹   XP_006242082
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,460,656 - 111,478,046 (-)NCBI
Rnor_6.07121,136,067 - 121,153,489 (-)NCBI
Rnor_5.07121,126,405 - 121,144,401 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242021   ⟹   XP_006242083
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,462,756 - 111,478,053 (-)NCBI
Rnor_6.07121,138,216 - 121,153,490 (-)NCBI
Rnor_5.07121,126,405 - 121,144,401 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242022   ⟹   XP_006242084
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,462,754 - 111,479,231 (-)NCBI
Rnor_6.07121,138,485 - 121,153,503 (-)NCBI
Rnor_5.07121,126,405 - 121,144,401 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242025   ⟹   XP_006242087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,462,716 - 111,478,026 (-)NCBI
Rnor_6.07121,138,127 - 121,153,447 (-)NCBI
Rnor_5.07121,126,405 - 121,144,401 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079590   ⟹   XP_038935518
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,460,656 - 111,477,674 (-)NCBI
RefSeq Acc Id: XM_039079591   ⟹   XP_038935519
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,460,656 - 111,478,036 (-)NCBI
RefSeq Acc Id: XM_039079592   ⟹   XP_038935520
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,462,754 - 111,478,036 (-)NCBI
RefSeq Acc Id: XM_039079593   ⟹   XP_038935521
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,460,656 - 111,478,034 (-)NCBI
RefSeq Acc Id: XR_355830
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27111,462,755 - 111,478,049 (-)NCBI
Rnor_6.07121,138,216 - 121,153,489 (-)NCBI
Rnor_5.07121,126,405 - 121,144,401 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_954548   ⟸   NM_199117
- UniProtKB: P60889 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242082   ⟸   XM_006242020
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242087   ⟸   XM_006242025
- Peptide Label: isoform X5
- UniProtKB: P60889 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242083   ⟸   XM_006242021
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242084   ⟸   XM_006242022
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000074584   ⟸   ENSRNOT00000077731
RefSeq Acc Id: ENSRNOP00000022631   ⟸   ENSRNOT00000022631
RefSeq Acc Id: XP_038935519   ⟸   XM_039079591
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038935521   ⟸   XM_039079593
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038935518   ⟸   XM_039079590
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038935520   ⟸   XM_039079592
- Peptide Label: isoform X6
Protein Domains
Chromo

Transcriptome

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

Promoters
RGD ID:13695491
Promoter ID:EPDNEW_R6016
Type:single initiation site
Name:Cbx7_1
Description:chromobox 7
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_6.07121,153,391 - 121,153,451EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:735027 AgrOrtholog
Ensembl Genes ENSRNOG00000016875 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000022631 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074584 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000022631 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000077731 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5621139 IMAGE-MGC_LOAD
InterPro CBX7 UniProtKB/Swiss-Prot
  CBX7_C UniProtKB/Swiss-Prot
  Chromo-like_dom_sf UniProtKB/Swiss-Prot
  Chromo/chromo_shadow_dom UniProtKB/Swiss-Prot
  Chromo_dom_subgr UniProtKB/Swiss-Prot
  Chromo_domain UniProtKB/Swiss-Prot
  Chromodomain_CS UniProtKB/Swiss-Prot
KEGG Report rno:362962 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72633 IMAGE-MGC_LOAD
NCBI Gene 362962 ENTREZGENE
PANTHER PTHR47277 UniProtKB/Swiss-Prot
Pfam CBX7_C UniProtKB/Swiss-Prot
  Chromo UniProtKB/Swiss-Prot
PhenoGen Cbx7 PhenoGen
PRINTS CHROMODOMAIN UniProtKB/Swiss-Prot
PROSITE CHROMO_1 UniProtKB/Swiss-Prot
  CHROMO_2 UniProtKB/Swiss-Prot
SMART CHROMO UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54160 UniProtKB/Swiss-Prot
UniProt CBX7_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Cbx7  chromobox 7  Cbx7  chromobox homolog 7  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Cbx7  chromobox homolog 7    chromobox 7  Name updated 1299863 APPROVED