Cog2 (component of oligomeric golgi complex 2) - Rat Genome Database

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Gene: Cog2 (component of oligomeric golgi complex 2) Rattus norvegicus
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Symbol: Cog2
Name: component of oligomeric golgi complex 2
RGD ID: 1589822
Description: Predicted to be involved in Golgi organization; glycosylation; and retrograde transport, vesicle recycling within Golgi. Part of Golgi transport complex. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation type IIq. Orthologous to human COG2 (component of oligomeric golgi complex 2); INTERACTS WITH bisphenol A; cadmium dichloride; paracetamol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: conserved oligomeric Golgi complex subunit 2; LOC690961; similar to component of oligomeric golgi complex 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81969,391,305 - 69,430,072 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1969,391,326 - 69,426,620 (+)EnsemblGRCr8
mRatBN7.21952,493,901 - 52,532,667 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,493,932 - 52,526,874 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1959,278,917 - 59,311,419 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01960,130,352 - 60,163,480 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01962,205,372 - 62,237,874 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01957,286,955 - 57,322,853 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,286,985 - 57,319,329 (+)Ensemblrn6Rnor6.0
Rnor_5.01967,991,534 - 68,027,336 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41954,703,252 - 54,736,246 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1951,863,929 - 51,896,870 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
Golgi membrane  (IEA)
Golgi stack  (IEA,ISO)
Golgi transport complex  (IBA,IDA,IEA,ISO)
membrane  (IEA)

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. Sec34 is implicated in traffic from the endoplasmic reticulum to the Golgi and exists in a complex with GTC-90 and ldlBp. Loh E and Hong W, J Biol Chem. 2002 Jun 14;277(24):21955-61. Epub 2002 Apr 2.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. Characterization of a mammalian Golgi-localized protein complex, COG, that is required for normal Golgi morphology and function. Ungar D, etal., J Cell Biol. 2002 Apr 29;157(3):405-15. Epub 2002 Apr 29.
Additional References at PubMed
PMID:7962052   PMID:15047703  


Genomics

Comparative Map Data
Cog2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81969,391,305 - 69,430,072 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1969,391,326 - 69,426,620 (+)EnsemblGRCr8
mRatBN7.21952,493,901 - 52,532,667 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,493,932 - 52,526,874 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1959,278,917 - 59,311,419 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01960,130,352 - 60,163,480 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01962,205,372 - 62,237,874 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01957,286,955 - 57,322,853 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,286,985 - 57,319,329 (+)Ensemblrn6Rnor6.0
Rnor_5.01967,991,534 - 68,027,336 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41954,703,252 - 54,736,246 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1951,863,929 - 51,896,870 (+)NCBICelera
Cytogenetic Map19q12NCBI
COG2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381230,642,481 - 230,693,982 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1230,642,464 - 230,693,985 (+)Ensemblhg38GRCh38
GRCh371230,778,227 - 230,829,728 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361228,844,881 - 228,896,351 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341227,084,992 - 227,136,462NCBI
Celera1204,044,170 - 204,095,755 (+)NCBICelera
Cytogenetic Map1q42.2NCBI
HuRef1201,263,101 - 201,314,677 (+)NCBIHuRef
CHM1_11232,051,215 - 232,102,746 (+)NCBICHM1_1
T2T-CHM13v2.01230,022,982 - 230,074,527 (+)NCBIT2T-CHM13v2.0
Cog2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398125,247,506 - 125,278,747 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8125,247,506 - 125,278,747 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm388124,520,767 - 124,552,008 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8124,520,767 - 124,552,008 (+)Ensemblmm10GRCm38
MGSCv378127,044,667 - 127,075,908 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv368127,406,917 - 127,438,098 (+)NCBIMGSCv36mm8
Celera8128,824,258 - 128,856,384 (+)NCBICelera
Cytogenetic Map8E2NCBI
cM Map872.78NCBI
Cog2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554927,879,548 - 7,922,266 (-)Ensembl
ChiLan1.0NW_0049554927,879,071 - 7,922,195 (-)NCBIChiLan1.0ChiLan1.0
COG2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2118,512,371 - 18,563,921 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1118,704,863 - 18,756,422 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01206,192,089 - 206,243,604 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11211,219,050 - 211,270,483 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1211,219,199 - 211,269,894 (+)EnsemblpanPan2panpan1.1
COG2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ROS_Cfam_1.048,726,595 - 8,777,957 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl48,726,595 - 8,777,970 (-)EnsemblROS_Cfam_1.0 Ensembl
Cog2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,558,250 - 43,590,958 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648419,722,374 - 19,756,504 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493648419,723,475 - 19,756,136 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COG2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1459,661,768 - 59,704,008 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11459,661,762 - 59,704,006 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21464,343,277 - 64,376,880 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COG2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12567,904,611 - 67,956,278 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2567,904,638 - 67,956,435 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605569,810,151 - 69,861,840 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cog2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477518,861,823 - 18,906,517 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462477518,861,329 - 18,906,634 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cog2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11744,045,446 - 44,079,051 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:46
Count of miRNA genes:41
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000058074
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat

Markers in Region
RH129735  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21952,526,610 - 52,526,817 (+)MAPPERmRatBN7.2
Rnor_6.01957,319,066 - 57,319,272NCBIRnor6.0
Rnor_5.01968,023,654 - 68,023,860UniSTSRnor5.0
RGSC_v3.41954,735,983 - 54,736,189UniSTSRGSC3.4
Celera1951,896,607 - 51,896,813UniSTS
RH 3.4 Map19721.4UniSTS
Cytogenetic Map19q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000058074   ⟹   ENSRNOP00000054881
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1969,391,326 - 69,426,620 (+)Ensembl
mRatBN7.2 Ensembl1952,493,932 - 52,526,874 (+)Ensembl
Rnor_6.0 Ensembl1957,286,985 - 57,319,329 (+)Ensembl
RefSeq Acc Id: NM_001110494   ⟹   NP_001103964
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81969,391,332 - 69,424,274 (+)NCBI
mRatBN7.21952,493,932 - 52,526,874 (+)NCBI
Rnor_6.01957,286,985 - 57,319,329 (+)NCBI
Rnor_5.01967,991,534 - 68,027,336 (+)NCBI
RGSC_v3.41954,703,252 - 54,736,246 (+)RGD
Celera1951,863,929 - 51,896,870 (+)RGD
Sequence:
RefSeq Acc Id: XM_006255816   ⟹   XP_006255878
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81969,391,305 - 69,424,238 (+)NCBI
mRatBN7.21952,493,903 - 52,526,842 (+)NCBI
Rnor_6.01957,286,955 - 57,319,297 (+)NCBI
Rnor_5.01967,991,534 - 68,027,336 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063278299   ⟹   XP_063134369
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81969,391,305 - 69,418,696 (+)NCBI
RefSeq Acc Id: XR_001842215
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81969,391,305 - 69,430,072 (+)NCBI
mRatBN7.21952,493,904 - 52,532,667 (+)NCBI
Rnor_6.01957,286,955 - 57,322,853 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001103964 (Get FASTA)   NCBI Sequence Viewer  
  XP_006255878 (Get FASTA)   NCBI Sequence Viewer  
  XP_063134369 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL96731 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000054881
  ENSRNOP00000054881.2
RefSeq Acc Id: NP_001103964   ⟸   NM_001110494
- UniProtKB: D3ZT01 (UniProtKB/TrEMBL),   A6KJ08 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255878   ⟸   XM_006255816
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000054881   ⟸   ENSRNOT00000058074
RefSeq Acc Id: XP_063134369   ⟸   XM_063278299
- Peptide Label: isoform X2
Protein Domains
COG complex component COG2 C-terminal   Conserved oligomeric Golgi complex subunit 2 N-

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZT01-F1-model_v2 AlphaFold D3ZT01 1-730 view protein structure

Transcriptome

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

Promoters
RGD ID:13701233
Promoter ID:EPDNEW_R11757
Type:initiation region
Name:Cog2_1
Description:component of oligomeric golgi complex 2
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_6.01957,287,002 - 57,287,062EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589822 AgrOrtholog
BioCyc Gene G2FUF-5245 BioCyc
Ensembl Genes ENSRNOG00000018228 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000058074 ENTREZGENE
  ENSRNOT00000058074.4 UniProtKB/TrEMBL
InterPro COG2 UniProtKB/TrEMBL
  COG_complex_COG2_C UniProtKB/TrEMBL
  COG_su2_N UniProtKB/TrEMBL
KEGG Report rno:690961 UniProtKB/TrEMBL
NCBI Gene 690961 ENTREZGENE
PANTHER COG2 UniProtKB/TrEMBL
  CONSERVED OLIGOMERIC GOLGI COMPLEX SUBUNIT 2 UniProtKB/TrEMBL
Pfam COG2 UniProtKB/TrEMBL
  DUF3510 UniProtKB/TrEMBL
PhenoGen Cog2 PhenoGen
RatGTEx ENSRNOG00000018228 RatGTEx
UniProt A6KJ08 ENTREZGENE, UniProtKB/TrEMBL
  D3ZT01 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Cog2  component of oligomeric golgi complex 2  LOC678914  similar to component of oligomeric golgi complex 2  Data merged from RGD:1594314 1643240 APPROVED
2008-03-06 Cog2  component of oligomeric golgi complex 2  LOC690961  similar to component of oligomeric golgi complex 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC690961  similar to component of oligomeric golgi complex 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC678914  similar to component of oligomeric golgi complex 2      Symbol and Name status set to provisional 70820 PROVISIONAL