Cbx3l1 (chromobox 3 like 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Cbx3l1 (chromobox 3 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cbx3l1 (Ensembl: LOC100360260)
Name: chromobox 3 like 1 (Ensembl:chromobox homolog 3-like)
RGD ID: 2322491
Description: Predicted to be located in nucleus.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: AABR07025301.1; chromobox homolog 3-like; chromobox protein homolog 3-like; LOC100360260
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81634,197,676 - 34,200,228 (-)NCBIGRCr8
mRatBN7.21629,186,833 - 29,188,609 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1629,188,184 - 29,188,562 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01632,508,871 - 32,511,270 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1632,509,708 - 32,510,086 (-)NCBIRnor6.0rn6Rnor6.0
Rnor_5.01632,343,901 - 32,344,972 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41632,507,709 - 32,508,260 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1629,181,496 - 29,184,393 (-)NCBICelera
Cytogenetic Map16p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Cbx3l1
15 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162173597566735975Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat

Markers in Region
UniSTS:238126  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21629,187,987 - 29,188,532 (+)MAPPERmRatBN7.2
mRatBN7.2568,280,773 - 68,281,315 (+)MAPPERmRatBN7.2
Rnor_6.0570,462,975 - 70,463,516NCBIRnor6.0
Rnor_6.01632,509,512 - 32,510,056NCBIRnor6.0
Rnor_5.01632,344,352 - 32,344,896UniSTSRnor5.0
Rnor_5.0574,620,539 - 74,621,080UniSTSRnor5.0
RGSC_v3.4571,095,184 - 71,095,725UniSTSRGSC3.4
RGSC_v3.41632,507,686 - 32,508,230UniSTSRGSC3.4
Celera1629,182,635 - 29,183,179UniSTS
Celera567,175,084 - 67,175,625UniSTS
Cytogenetic Map5q24UniSTS
Cytogenetic Map16p12UniSTS
Cytogenetic Map4q24UniSTS


Expression


Sequence


RefSeq Acc Id: ENSRNOT00000082590   ⟹   ENSRNOP00000078540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1629,188,184 - 29,188,562 (-)Ensembl
RefSeq Acc Id: XM_063275970   ⟹   XP_063132040
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81634,197,676 - 34,200,228 (-)NCBI
Protein Sequences
Protein RefSeqs XP_063132040 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000078540.1
RefSeq Acc Id: ENSRNOP00000078540   ⟸   ENSRNOT00000082590
RefSeq Acc Id: XP_063132040   ⟸   XM_063275970
Protein Domains
Chromo

Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-11575 BioCyc
Ensembl Genes ENSRNOG00000060395 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082590.2 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro Chromo-like_dom_sf UniProtKB/TrEMBL
  Chromo/chromo_shadow_dom UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
NCBI Gene 100360260 ENTREZGENE
PANTHER CHROMOBOX PROTEIN UniProtKB/TrEMBL
  CHROMOBOX PROTEIN HOMOLOG 3 UniProtKB/TrEMBL
Pfam Chromo UniProtKB/TrEMBL
PhenoGen Cbx3l1 PhenoGen
PROSITE CHROMO_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000060395 RatGTEx
Superfamily-SCOP SSF54160 UniProtKB/TrEMBL
UniProt A0A8I5ZL44_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Cbx3l1  chromobox 3 like 1  LOC100360260  chromobox homolog 3-like  Symbol and Name Changed 1299863 APPROVED
2022-06-02 LOC100360260  chromobox homolog 3-like  AABR07025301.1    Data merged from RGD:15013290 737654 PROVISIONAL
2019-11-08 AABR07025301.1        Symbol and Name status set to provisional 45752 PROVISIONAL
2010-05-06 LOC100360260  chromobox homolog 3-like      Symbol and Name status set to provisional 70820 PROVISIONAL