LOC100361008 (Cytochrome c oxidase subunit 5A, mitochondrial-like) - Rat Genome Database

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Gene: LOC100361008 (Cytochrome c oxidase subunit 5A, mitochondrial-like) Rattus norvegicus
Analyze
No known orthologs.
Symbol: LOC100361008
Name: Cytochrome c oxidase subunit 5A, mitochondrial-like
RGD ID: 2320952
Description: Predicted to enable metal ion binding activity. Predicted to be involved in mitochondrial electron transport, cytochrome c to oxygen. Predicted to be part of mitochondrial respiratory chain complex IV.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC100361427
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8334,201,663 - 34,202,295 (-)NCBIGRCr8
mRatBN7.2313,803,887 - 13,804,503 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl313,804,033 - 13,804,473 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.039,095,895 - 9,096,496 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl39,096,044 - 9,096,481 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0314,460,673 - 14,461,265 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.439,575,637 - 9,576,077 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera38,569,224 - 8,569,827 (-)NCBICelera
Cytogenetic Map3p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:25002582  


Genomics

Variants

.
Variants in LOC100361008
12 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:100
Count of miRNA genes:85
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000033253
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)31077870450302886Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)31077882330356773Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
1558657Cm43Cardiac mass QTL 436.60.0000000293heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat

Markers in Region
AA959768  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2857,930,207 - 57,931,520 (+)MAPPERmRatBN7.2
mRatBN7.2313,804,219 - 13,804,383 (+)MAPPERmRatBN7.2
Rnor_6.039,096,228 - 9,096,391NCBIRnor6.0
Rnor_6.0862,306,192 - 62,307,504NCBIRnor6.0
Rnor_5.0862,083,428 - 62,084,740UniSTSRnor5.0
Rnor_5.0314,461,006 - 14,461,169UniSTSRnor5.0
RGSC_v3.4861,272,807 - 61,274,119UniSTSRGSC3.4
RGSC_v3.439,575,824 - 9,575,987UniSTSRGSC3.4
Celera38,569,559 - 8,569,722UniSTS
Celera857,396,397 - 57,397,709UniSTS
Cytogenetic Map8q24UniSTS
UniSTS:141382  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2313,803,968 - 13,804,115 (+)MAPPERmRatBN7.2
mRatBN7.2857,932,932 - 57,933,698 (+)MAPPERmRatBN7.2
Rnor_6.0862,308,917 - 62,309,682NCBIRnor6.0
Rnor_6.039,095,977 - 9,096,123NCBIRnor6.0
Rnor_5.0862,086,153 - 62,086,918UniSTSRnor5.0
Rnor_5.0314,460,755 - 14,460,901UniSTSRnor5.0
RGSC_v3.4861,275,532 - 61,276,297UniSTSRGSC3.4
RGSC_v3.439,575,573 - 9,575,719UniSTSRGSC3.4
Celera38,569,308 - 8,569,454UniSTS
Celera857,399,122 - 57,399,887UniSTS
Cytogenetic Map8q24UniSTS
RH134568  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2313,803,967 - 13,804,181 (+)MAPPERmRatBN7.2
Rnor_6.039,095,976 - 9,096,189NCBIRnor6.0
Rnor_5.0314,460,754 - 14,460,967UniSTSRnor5.0
RGSC_v3.439,575,572 - 9,575,785UniSTSRGSC3.4
Celera38,569,307 - 8,569,520UniSTS
Cytogenetic Map8q24UniSTS


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 2 2 1 1
Low 3 6 8 3 6 3 2 3 2 3 3 5 2
Below cutoff 19 14 4 9 4 6 6 17 9 13 5 6

Sequence


RefSeq Acc Id: ENSRNOT00000033253
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl313,804,033 - 13,804,473 (-)Ensembl
Rnor_6.0 Ensembl39,096,044 - 9,096,481 (-)Ensembl
RefSeq Acc Id: XM_039106170   ⟹   XP_038962098
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8334,201,663 - 34,202,295 (-)NCBI
mRatBN7.2313,803,887 - 13,804,503 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038962098 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025525.2
  ENSRNOP00000084920
  ENSRNOP00000084920.1
RefSeq Acc Id: XP_038962098   ⟸   XM_039106170
- UniProtKB: A0A8I6A0L0 (UniProtKB/TrEMBL),   A0A8L2QDJ0 (UniProtKB/TrEMBL)

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-50204 BioCyc
Ensembl Genes ENSRNOG00000018816 UniProtKB/TrEMBL
  ENSRNOG00000022490 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025525.5 UniProtKB/TrEMBL
  ENSRNOT00000033253.3 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.40 UniProtKB/TrEMBL
InterPro Cyt_c_oxidase_su5A/6 UniProtKB/TrEMBL
  Cyt_c_oxidase_su5A/6_sf UniProtKB/TrEMBL
NCBI Gene 100361008 ENTREZGENE
PANTHER CYTOCHROME C OXIDASE SUBUNIT 5A, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR14200 UniProtKB/TrEMBL
Pfam COX5A UniProtKB/TrEMBL
PhenoGen LOC100361008 PhenoGen
RatGTEx ENSRNOG00000018816 RatGTEx
  ENSRNOG00000022490 RatGTEx
Superfamily-SCOP SSF48479 UniProtKB/TrEMBL
UniProt A0A8I6A0L0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QDJ0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 LOC100361008  Cytochrome c oxidase subunit 5A, mitochondrial-like  LOC100361427  Cytochrome c oxidase subunit 5A, mitochondrial-like  Data merged from RGD:2320138 737654 PROVISIONAL
2010-05-05 LOC100361008  Cytochrome c oxidase subunit 5A, mitochondrial-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2010-05-05 LOC100361427  Cytochrome c oxidase subunit 5A, mitochondrial-like      Symbol and Name status set to provisional 70820 PROVISIONAL