Cox7a2-ps2 (cytochrome c oxidase subunit 7A2, pseudogene 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Cox7a2-ps2 (cytochrome c oxidase subunit 7A2, pseudogene 2) Rattus norvegicus
Analyze
Symbol: Cox7a2-ps2 (Ensembl: Cox7a2)
Name: cytochrome c oxidase subunit 7A2, pseudogene 2 (Ensembl:cytochrome c oxidase subunit 7A2)
RGD ID: 1589992
Description: Predicted to enable oxidoreductase activity. Predicted to be involved in mitochondrial electron transport, cytochrome c to oxygen and proton transmembrane transport. Predicted to be located in mitochondrial inner membrane. Predicted to be part of respiratory chain complex IV. Orthologous to human COX7A2 (cytochrome c oxidase subunit 7A2) and COX7A2P2 (cytochrome c oxidase subunit 7A2 pseudogene 2); PARTICIPATES IN Alzheimer's disease pathway; Huntington's disease pathway; oxidative phosphorylation pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine.
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: MODEL
Previously known as: Cox7a2; Cox7a2l2; Cox7a3; Cox7al; cytochrome c oxidase subunit 7A2, mitochondrial; cytochrome c oxidase subunit VIIa polypeptide 2-like 2; Cytochrome c oxidase subunit VIIa-L; Cytochrome c oxidase subunit VIIa-liver/heart; LOC688386; similar to cytochrome c oxidase, subunit 7a 3
RGD Orthologs
Human
Alliance Orthologs
More Info more info ...
Related Functional Gene: Cox7a2  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81455,514,223 - 55,514,681 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl889,597,052 - 89,601,177 (-)EnsemblGRCr8
GRCr8 Ensembl1455,514,261 - 55,514,512 (+)EnsemblGRCr8
mRatBN7.21451,301,169 - 51,301,612 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl880,716,825 - 80,720,264 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl1451,301,168 - 51,301,633 (+)EnsemblmRatBN7.2
Rnor_6.01452,661,933 - 52,662,375 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl887,209,530 - 87,213,627 (-)Ensemblrn6Rnor6.0
Rnor_5.01452,813,660 - 52,814,103 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41455,352,607 - 55,352,858 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1450,506,124 - 50,506,566 (+)NCBICelera
Cytogenetic Map14q11NCBI
JBrowse:




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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15632090  


Genomics

Comparative Map Data
Cox7a2-ps2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81455,514,223 - 55,514,681 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl889,597,052 - 89,601,177 (-)EnsemblGRCr8
GRCr8 Ensembl1455,514,261 - 55,514,512 (+)EnsemblGRCr8
mRatBN7.21451,301,169 - 51,301,612 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl880,716,825 - 80,720,264 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl1451,301,168 - 51,301,633 (+)EnsemblmRatBN7.2
Rnor_6.01452,661,933 - 52,662,375 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl887,209,530 - 87,213,627 (-)Ensemblrn6Rnor6.0
Rnor_5.01452,813,660 - 52,814,103 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41455,352,607 - 55,352,858 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1450,506,124 - 50,506,566 (+)NCBICelera
Cytogenetic Map14q11NCBI
COX7A2P2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38496,902,763 - 96,903,189 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl496,902,801 - 96,903,050 (+)Ensemblhg38GRCh38
GRCh37497,823,914 - 97,824,340 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36498,042,975 - 98,043,295 (+)NCBIBuild 36Build 36hg18NCBI36
Celera495,119,526 - 95,119,948 (+)NCBICelera
Cytogenetic Map4q22.3NCBI
HuRef493,561,189 - 93,561,611 (+)NCBIHuRef
CHM1_1497,800,389 - 97,800,811 (+)NCBICHM1_1
T2T-CHM13v2.04100,217,568 - 100,217,994 (+)NCBIT2T-CHM13v2.0

Variants

.
Variants in Cox7a2-ps2
5 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:106
Count of miRNA genes:89
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000038497
Prediction methods:Microtar, 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
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142216796767167967Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat

Markers in Region
RH127632  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21451,301,188 - 51,301,397 (+)MAPPERmRatBN7.2
Rnor_6.01452,661,952 - 52,662,160NCBIRnor6.0
Rnor_5.01452,813,680 - 52,813,888UniSTSRnor5.0
RGSC_v3.41455,352,593 - 55,352,801UniSTSRGSC3.4
Celera1450,506,143 - 50,506,351UniSTS
RH 3.4 Map21228.8UniSTS
Cytogenetic Map14q11UniSTS
Cytogenetic Map8q24-q31UniSTS


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
22 12 73 182 111 106 64 98 64 10 390 215 10 152 81 102 42 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000038497   ⟹   ENSRNOP00000094897
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1451,301,168 - 51,301,633 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000066084   ⟹   ENSRNOP00000060398
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl880,716,825 - 80,720,264 (-)Ensembl
Rnor_6.0 Ensembl887,209,530 - 87,213,627 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120756   ⟹   ENSRNOP00000098381
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl889,597,053 - 89,601,177 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000161883   ⟹   ENSRNOP00000112719
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl889,597,052 - 89,600,491 (-)Ensembl
RefSeq Acc Id: XM_003751367   ⟹   XP_003751415
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81455,514,223 - 55,514,681 (+)NCBI
mRatBN7.21451,301,169 - 51,301,612 (+)NCBI
Rnor_6.01452,661,933 - 52,662,375 (+)NCBI
Rnor_5.01452,813,660 - 52,814,103 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003751415 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL99854 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000094897.1
RefSeq Acc Id: XP_003751415   ⟸   XM_003751367
- Sequence:
Ensembl Acc Id: ENSRNOP00000060398   ⟸   ENSRNOT00000066084
Ensembl Acc Id: ENSRNOP00000094897   ⟸   ENSRNOT00000038497
Ensembl Acc Id: ENSRNOP00000112719   ⟸   ENSRNOT00000161883
Ensembl Acc Id: ENSRNOP00000098381   ⟸   ENSRNOT00000120756

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P35171-F1-model_v2 AlphaFold P35171 1-83 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589992 AgrOrtholog
BioCyc Gene G2FUF-15657 BioCyc
BioCyc Pathway PWY-3781 [aerobic respiration I (cytochrome c)] BioCyc
  PWY-7279 [aerobic respiration II (cytochrome c) (yeast)] BioCyc
BioCyc Pathway Image PWY-3781 BioCyc
  PWY-7279 BioCyc
Ensembl Genes ENSRNOG00000027791 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00000042903 Ensembl
Ensembl Transcript ENSRNOT00000038497 ENTREZGENE
  ENSRNOT00000038497.6 UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.91.10 UniProtKB/Swiss-Prot
InterPro COX7a UniProtKB/Swiss-Prot
  Cyt_c_oxidase_su7a_sf UniProtKB/Swiss-Prot
  Cytc_oxidase_su7a_met UniProtKB/Swiss-Prot
KEGG Report rno:29507 UniProtKB/Swiss-Prot
  rno:688386 UniProtKB/Swiss-Prot
NCBI Gene 688386 ENTREZGENE
PANTHER CYTOCHROME C OXIDASE SUBUNIT 7A2, MITOCHONDRIAL UniProtKB/Swiss-Prot
  PTHR10510 UniProtKB/Swiss-Prot
Pfam COX7a UniProtKB/Swiss-Prot
PhenoGen Cox7a2-ps2 PhenoGen
RatGTEx ENSRNOG00000027791 RatGTEx
  ENSRNOG00000042903 RatGTEx
Superfamily-SCOP SSF81419 UniProtKB/Swiss-Prot
UniProt B2RYS0_RAT UniProtKB/TrEMBL
  CX7A2_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-08-05 Cox7a2-ps2  cytochrome c oxidase subunit 7A2, pseudogene 2  Cox7a2l2  cytochrome c oxidase subunit VIIa polypeptide 2-like 2  Name and Symbol and Type changed (type changed from [protein-coding] to [pseudo]) 629549 APPROVED
2010-04-23 Cox7a2l2  cytochrome c oxidase subunit VIIa polypeptide 2-like 2  LOC688386  similar to cytochrome c oxidase, subunit 7a 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC688386  similar to cytochrome c oxidase, subunit 7a 3  LOC679008  similar to cytochrome c oxidase, subunit 7a 3  Data merged from RGD:1593116 1643240 APPROVED
2006-11-20 LOC688386  similar to cytochrome c oxidase, subunit 7a 3      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC679008  similar to cytochrome c oxidase, subunit 7a 3      Symbol and Name status set to provisional 70820 PROVISIONAL