Cox16 (cytochrome c oxidase assembly factor COX16) - Rat Genome Database

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Gene: Cox16 (cytochrome c oxidase assembly factor COX16) Rattus norvegicus
Analyze
Symbol: Cox16
Name: cytochrome c oxidase assembly factor COX16
RGD ID: 2311610
Description: Predicted to be involved in mitochondrial cytochrome c oxidase assembly. Predicted to be active in mitochondrial inner membrane. Human ortholog(s) of this gene implicated in mitochondrial complex IV deficiency nuclear type 22. Orthologous to human COX16 (cytochrome c oxidase assembly factor COX16); INTERACTS WITH 6-propyl-2-thiouracil; acetamide; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: COX16 cytochrome c oxidase assembly homolog; COX16 cytochrome c oxidase assembly homolog (S. cerevisiae); COX16, cytochrome c oxidase assembly homolog; cytochrome c oxidase assembly protein 16
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86106,745,424 - 106,912,523 (-)NCBIGRCr8
mRatBN7.26101,162,231 - 101,181,277 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6101,019,680 - 101,181,246 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6101,323,570 - 101,336,458 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06101,622,760 - 101,635,648 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06100,995,280 - 101,008,152 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06105,195,387 - 105,214,366 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6105,201,395 - 105,214,329 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06113,341,554 - 113,360,545 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46105,330,602 - 105,343,616 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera699,008,152 - 99,021,142 (-)NCBICelera
Cytogenetic Map6q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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
Additional References at PubMed
PMID:18614015   PMID:29355485   PMID:29381136  


Genomics

Comparative Map Data
Cox16
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86106,745,424 - 106,912,523 (-)NCBIGRCr8
mRatBN7.26101,162,231 - 101,181,277 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6101,019,680 - 101,181,246 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6101,323,570 - 101,336,458 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06101,622,760 - 101,635,648 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06100,995,280 - 101,008,152 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06105,195,387 - 105,214,366 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6105,201,395 - 105,214,329 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06113,341,554 - 113,360,545 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46105,330,602 - 105,343,616 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera699,008,152 - 99,021,142 (-)NCBICelera
Cytogenetic Map6q24NCBI
COX16
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381470,325,081 - 70,359,683 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1470,325,081 - 70,416,984 (-)EnsemblGRCh38hg38GRCh38
GRCh371470,791,798 - 70,826,400 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361469,862,534 - 69,896,147 (-)NCBINCBI36Build 36hg18NCBI36
Build 341469,862,537 - 69,896,147NCBI
Celera1450,855,976 - 50,890,545 (-)NCBICelera
Cytogenetic Map14q24.2NCBI
HuRef1450,959,879 - 50,994,354 (-)NCBIHuRef
CHM1_11470,729,936 - 70,764,563 (-)NCBICHM1_1
T2T-CHM13v2.01464,531,030 - 64,565,566 (-)NCBIT2T-CHM13v2.0
Cox16
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391281,405,626 - 81,531,911 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1281,405,800 - 81,531,901 (-)EnsemblGRCm39 Ensembl
GRCm381281,358,852 - 81,485,137 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1281,359,026 - 81,485,127 (-)EnsemblGRCm38mm10GRCm38
MGSCv371282,571,691 - 82,586,097 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361282,389,552 - 82,403,958 (-)NCBIMGSCv36mm8
Celera1282,936,239 - 82,950,641 (-)NCBICelera
Cytogenetic Map12D1NCBI
cM Map1237.6NCBI
LOC102023128
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955466130,341 - 142,969 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955466130,341 - 142,969 (+)NCBIChiLan1.0ChiLan1.0
LOC103787041
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21571,449,111 - 71,484,147 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11470,665,624 - 70,699,795 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01450,918,444 - 50,952,390 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11469,788,836 - 69,822,384 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1469,788,841 - 69,822,480 (-)Ensemblpanpan1.1panPan2
COX16
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1844,006,532 - 44,032,041 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl844,006,423 - 44,032,173 (-)NCBICanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl844,006,423 - 44,032,173 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha843,689,645 - 43,715,554 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0844,229,687 - 44,255,617 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl844,229,840 - 44,255,604 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1843,843,400 - 43,870,127 (-)NCBIUMICH_Zoey_3.1
UMICH_Zoey_3.1X55,387,065 - 55,387,576 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0843,917,455 - 43,943,529 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0844,277,806 - 44,303,962 (-)NCBIUU_Cfam_GSD_1.0
COX16
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl793,861,141 - 93,882,600 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1793,861,138 - 93,882,595 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27100,173,169 - 100,286,419 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COX16
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12447,565,468 - 47,598,605 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2447,565,472 - 47,598,525 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605335,785,232 - 35,816,366 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cox16
21 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:24
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000008954
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)645790088104200226Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)657730540104085867Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)657730540104085867Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)658632962103632962Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)661747639106747639Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)667262953112262953Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)671201409116201409Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)672202632115200186Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)672202632117202632Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)672202632130729475Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)672202632130919985Rat
1581550Pur8Proteinuria QTL 8urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)672227641130729205Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)672227641130729205Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)673463459109394713Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)681132889104393926Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)681132889104393926Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)682523650110548006Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)683190345106747639Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)684130881129130881Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)685140138130140138Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)685140138130140138Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)685311061133478515Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)686894788131894788Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)688047916133047916Rat
1331722Thshl1Thyroid stimulating hormone level QTL 111.70.0001blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)689762877106752806Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)693701310128713626Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)694968928137848904Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6100671796132340886Rat

Markers in Region
RH133506  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26101,168,452 - 101,168,635 (+)MAPPERmRatBN7.2
Rnor_6.06105,201,601 - 105,201,783NCBIRnor6.0
Rnor_5.06113,347,768 - 113,347,950UniSTSRnor5.0
RGSC_v3.46105,330,808 - 105,330,990UniSTSRGSC3.4
Celera699,008,358 - 99,008,540UniSTS
RH 3.4 Map6728.9UniSTS
Cytogenetic Map6q24UniSTS


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000008954   ⟹   ENSRNOP00000008954
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6101,019,680 - 101,181,246 (-)Ensembl
Rnor_6.0 Ensembl6105,201,395 - 105,214,329 (-)Ensembl
RefSeq Acc Id: NM_001163153   ⟹   NP_001156625
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86106,899,494 - 106,912,484 (-)NCBI
mRatBN7.26101,168,247 - 101,181,238 (-)NCBI
Rnor_6.06105,201,395 - 105,214,329 (-)NCBI
Rnor_5.06113,341,554 - 113,360,545 (-)NCBI
RGSC_v3.46105,330,602 - 105,343,616 (-)RGD
Celera699,008,152 - 99,021,142 (-)RGD
Sequence:
RefSeq Acc Id: XM_006240298   ⟹   XP_006240360
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86106,893,479 - 106,912,523 (-)NCBI
mRatBN7.26101,162,231 - 101,181,277 (-)NCBI
Rnor_6.06105,195,387 - 105,214,366 (-)NCBI
Rnor_5.06113,341,554 - 113,360,545 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063261363   ⟹   XP_063117433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr86106,745,424 - 106,912,522 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001156625 (Get FASTA)   NCBI Sequence Viewer  
  XP_006240360 (Get FASTA)   NCBI Sequence Viewer  
  XP_063117433 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL81417 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008954.4
RefSeq Acc Id: NP_001156625   ⟸   NM_001163153
- UniProtKB: A6JDM6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240360   ⟸   XM_006240298
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000008954   ⟸   ENSRNOT00000008954
RefSeq Acc Id: XP_063117433   ⟸   XM_063261363
- Peptide Label: isoform X2
- UniProtKB: D3Z8B0 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8B0-F1-model_v2 AlphaFold D3Z8B0 1-106 view protein structure

Transcriptome

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

Promoters
RGD ID:13694705
Promoter ID:EPDNEW_R5230
Type:initiation region
Name:Cox16_1
Description:COX16, cytochrome c oxidase assembly homolog
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_6.06105,214,311 - 105,214,371EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2311610 AgrOrtholog
BioCyc Gene G2FUF-36892 BioCyc
Ensembl Genes ENSRNOG00000047115 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008954.6 UniProtKB/TrEMBL
InterPro Cyt_c_Oxase_assmbl_COX16 UniProtKB/TrEMBL
KEGG Report rno:100302447 UniProtKB/TrEMBL
NCBI Gene 100302447 ENTREZGENE
PANTHER CYTOCHROME C OXIDASE ASSEMBLY PROTEIN COX16 HOMOLOG, MITOCHONDRIAL UniProtKB/TrEMBL
  MITOCHONDRIAL OUTER MEMBRANE PROTEIN 25 UniProtKB/TrEMBL
Pfam COX16 UniProtKB/TrEMBL
PhenoGen Cox16 PhenoGen
RatGTEx ENSRNOG00000047115 RatGTEx
UniProt A6JDM6 ENTREZGENE, UniProtKB/TrEMBL
  D3Z8B0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-07-05 Cox16  cytochrome c oxidase assembly factor COX16  Cox16  COX16, cytochrome c oxidase assembly homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-07-11 Cox16  COX16, cytochrome c oxidase assembly homolog  Cox16  cytochrome c oxidase assembly protein 16  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-09 Cox16  cytochrome c oxidase assembly protein 16  Cox16  COX16 cytochrome c oxidase assembly homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Cox16  COX16 cytochrome c oxidase assembly homolog (S. cerevisiae)  Cox16  COX16 cytochrome c oxidase assembly homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-07-24 Cox16  COX16 cytochrome c oxidase assembly homolog      Symbol and Name status set to provisional 70820 PROVISIONAL