Coa3 (cytochrome C oxidase assembly factor 3) - Rat Genome Database

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Gene: Coa3 (cytochrome C oxidase assembly factor 3) Mus musculus
Analyze
Symbol: Coa3
Name: cytochrome C oxidase assembly factor 3
RGD ID: 1620863
MGI Page MGI
Description: Predicted to be involved in mitochondrial cytochrome c oxidase assembly and positive regulation of mitochondrial translation. Located in mitochondrion. Human ortholog(s) of this gene implicated in mitochondrial complex IV deficiency nuclear type 14. Orthologous to human COA3 (cytochrome c oxidase assembly factor 3).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 1810033A19Rik; Ccdc56; coiled-coil domain containing 56; coiled-coil domain-containing protein 56; cytochrome C oxidase assembly factor 3 homolog, mitochondrial; cytochrome c oxidase assembly protein 3 homolog, mitochondrial; D11Ertd99; D11Ertd99e; HSPC009
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911101,168,796 - 101,169,774 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11101,168,794 - 101,169,940 (-)EnsemblGRCm39 Ensembl
GRCm3811101,277,970 - 101,278,948 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11101,277,968 - 101,279,114 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711101,139,284 - 101,140,262 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611101,094,060 - 101,095,038 (-)NCBIMGSCv36mm8
MGSCv3611102,057,055 - 102,058,033 (-)NCBIMGSCv36mm8
Cytogenetic Map11DNCBI
cM Map1164.56NCBI
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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:14651853   PMID:15489334  
PMID:15782199   PMID:16141072   PMID:16141073   PMID:18799693   PMID:21873635   PMID:30093551   PMID:31146259  


Genomics

Comparative Map Data
Coa3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911101,168,796 - 101,169,774 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11101,168,794 - 101,169,940 (-)EnsemblGRCm39 Ensembl
GRCm3811101,277,970 - 101,278,948 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11101,277,968 - 101,279,114 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711101,139,284 - 101,140,262 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611101,094,060 - 101,095,038 (-)NCBIMGSCv36mm8
MGSCv3611102,057,055 - 102,058,033 (-)NCBIMGSCv36mm8
Cytogenetic Map11DNCBI
cM Map1164.56NCBI
COA3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381742,797,625 - 42,798,704 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1742,795,147 - 42,798,704 (-)EnsemblGRCh38hg38GRCh38
GRCh371740,949,643 - 40,950,722 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361738,203,178 - 38,204,230 (-)NCBINCBI36Build 36hg18NCBI36
Celera1737,605,639 - 37,606,691 (-)NCBICelera
Cytogenetic Map17q21.2NCBI
HuRef1736,714,024 - 36,715,131 (-)NCBIHuRef
CHM1_11741,185,222 - 41,186,329 (-)NCBICHM1_1
T2T-CHM13v2.01743,654,765 - 43,655,844 (-)NCBIT2T-CHM13v2.0
Coa3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81086,720,454 - 86,721,435 (-)NCBIGRCr8
mRatBN7.21086,220,192 - 86,221,173 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1086,220,194 - 86,221,178 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1091,257,936 - 91,258,917 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01090,732,467 - 90,733,448 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01086,125,635 - 86,126,616 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01089,198,750 - 89,199,731 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1089,198,749 - 89,199,736 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01088,997,136 - 88,998,117 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41090,306,762 - 90,307,743 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1084,938,199 - 84,939,180 (-)NCBICelera
Cytogenetic Map10q31NCBI
LOC102025968
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545116,607,895 - 16,608,647 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545116,607,495 - 16,608,732 (-)NCBIChiLan1.0ChiLan1.0
LOC100970874
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21922,187,092 - 22,188,139 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11724,077,218 - 24,078,265 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01714,519,214 - 14,520,292 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11714,744,405 - 14,745,490 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1714,744,405 - 14,745,490 (+)Ensemblpanpan1.1panPan2
CCDC56
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1920,223,096 - 20,224,178 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl920,223,096 - 20,224,178 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha919,684,425 - 19,685,507 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0920,941,492 - 20,942,574 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl920,941,492 - 20,942,574 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1919,726,385 - 19,727,467 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0919,992,626 - 19,993,708 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0920,095,324 - 20,096,406 (+)NCBIUU_Cfam_GSD_1.0
LOC101972068
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560219,565,587 - 19,566,477 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649017,508,663 - 17,509,582 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649017,508,663 - 17,509,538 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100518575
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1220,062,826 - 20,063,980 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11220,062,831 - 20,063,984 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21220,277,783 - 20,278,913 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COA3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11663,485,730 - 63,487,076 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607734,285,274 - 34,286,353 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101712798
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247951,414,727 - 1,415,483 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247951,414,533 - 1,415,828 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Coa3
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:266
Count of miRNA genes:206
Interacting mature miRNAs:215
Transcripts:ENSMUST00000017332, ENSMUST00000168089
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301640Lore4_mloss of righting induced by ethanol 4 (mouse)Not determined1179156009107616472Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1300944Alcp20_malcohol preference locus 20 (mouse)Not determined1195403965121973369Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
1301535Pas5b_mpulmonary adenoma susceptibility 5b (mouse)Not determined1196176465108806384Mouse
1301958Alcp18_malcohol preference locus 18 (mouse)Not determined1195403965121973369Mouse
1301983Berr2_mberghei resistance locus 2 (mouse)Not determined1198352609121973369Mouse
1558753Ath19_matherosclerosis 19 (mouse)Not determined1191604608121973369Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
1302034Pkccl_mprotein kinase C content in lungs (mouse)Not determined1191604608121973369Mouse
1300766Skull16_mskull morphology 16 (mouse)Not determined1181574481115574636Mouse
1357631Motr1_mmodifier of tubby retinal degeneration 1 (mouse)Not determined1187691198103274115Mouse
4141465Dbm2_mdiabetes modifier 2 (mouse)Not determined94437183118022724Mouse
1300649Crhq1_mcompensatory renal hypertrophy QTL 1 (mouse)Not determined1181574481115574636Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
1301012Vispl_mvisual placing (mouse)Not determined11101022590121973369Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
1301057Nidd4_mnon-insulin-dependent diabetes mellitus 4 (mouse)Not determined1196810136121973369Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1301072Eae22_mexperimental allergic encephalomyelitis 22 (mouse)Not determined1182377698116377820Mouse
1301095El6_mepilepsy 6 (mouse)Not determined1193229183121973369Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172726125106726289Mouse
1300962Cd8mts4_mCD8 memory T cell subset 4 (mouse)Not determined1196137674121973369Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172818615106818733Mouse
10412288Carg4_mCandida albicans resistance gene 4 (mouse)Not determined1181810267115810267Mouse
10043865T2dm5sa_mtype 2 diabetes mellitus 5 in SMXA RI mice (mouse)Not determined1179813759104502698Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172818615106818733Mouse
10043976Obq33_mobesity QTL 33 (mouse)Not determined1198500469121973369Mouse
10044001Alcw8_malcohol withdrawal 8 (mouse)Not determined1199254187121973369Mouse
10044007Hbnr14_mHeligmosomoides bakeri nematode resistance 14 (mouse)Not determined1187502600121502698Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
10045617Heal26_mwound healing/regeneration 26 (mouse)Not determined1192939373112544554Mouse
4141939Pregq2_mpregnancy QTL 2 (mouse)Not determined1194063779118022724Mouse
14746970Manh71_mmandible shape 71 (mouse)1179416257113416257Mouse
11251723Ewc5_methanol withdrawal and consumption 5 (mouse)1189869251121973369Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
11553867Stmm5_mskin tumor modifier of MSM 5 (mouse)11100058103121973369Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
12910539Sstapa3_msuseptibility to Staphylococcus aureus infection 3 (mouse)1196897693110603991Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
14747003Mancz9_mmandible centroid size 9 (mouse)1185844911119844911Mouse
11341721Rvfs2_mRift Valley fever susceptibility 2 (mouse)11100254186120887165Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse
27226731Tibmd4_mtibia midshaft diameter 4, 10 week (mouse)1194190826118890826Mouse
15039376Bw42_mbody weight QTL 42 (mouse)1186608320120608320Mouse
13513919Heal56_mwound healing/ regeneration 56 (mouse)11101156468101540293Mouse
27226758Femd3_mfemur midshaft diameter 3, 5 week (mouse)1180890826101890826Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
15039374Adip29_madiposity 29 (mouse)1186608320120608320Mouse
15014785Mvlq1_mmacrovesicular liver lesion QTL 1 (mouse)1186608320120608320Mouse
27226789Feml16_mfemur length 16, 10 week (mouse)1187490826121873369Mouse

Markers in Region
RH126156  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3811101,277,987 - 101,278,230UniSTSGRCm38
MGSCv3711101,139,301 - 101,139,544UniSTSGRCm37
Cytogenetic Map11DUniSTS
cM Map1164.56UniSTS
cM Map1160.0UniSTS
Whitehead/MRC_RH111347.38UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000017332   ⟹   ENSMUSP00000017332
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11101,168,794 - 101,169,940 (-)Ensembl
GRCm38.p6 Ensembl11101,277,968 - 101,279,114 (-)Ensembl
RefSeq Acc Id: ENSMUST00000168089   ⟹   ENSMUSP00000130367
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11101,169,164 - 101,169,769 (-)Ensembl
GRCm38.p6 Ensembl11101,278,338 - 101,278,943 (-)Ensembl
RefSeq Acc Id: NM_026618   ⟹   NP_080894
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911101,168,796 - 101,169,774 (-)NCBI
GRCm3811101,277,970 - 101,278,948 (-)ENTREZGENE
MGSCv3711101,139,284 - 101,140,262 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_080894 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH26206 (Get FASTA)   NCBI Sequence Viewer  
  BAB31515 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000017332
  ENSMUSP00000017332.4
  ENSMUSP00000130367.2
GenBank Protein Q9D2R6 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_080894   ⟸   NM_026618
- UniProtKB: A2A4J6 (UniProtKB/Swiss-Prot),   Q9D2R6 (UniProtKB/Swiss-Prot),   E9Q6W2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000017332   ⟸   ENSMUST00000017332
RefSeq Acc Id: ENSMUSP00000130367   ⟸   ENSMUST00000168089
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D2R6-F1-model_v2 AlphaFold Q9D2R6 1-108 view protein structure

Promoters
RGD ID:6820636
Promoter ID:MM_KWN:9873
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000005513,   OTTMUST00000005514,   OTTMUST00000005515
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3611101,139,066 - 101,140,327 (+)MPROMDB
RGD ID:8676784
Promoter ID:EPDNEW_M16422
Type:multiple initiation site
Name:Coa3_1
Description:Mus musculus cytochrome C oxidase assembly factor 3 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3811101,278,938 - 101,278,998EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1098757 AgrOrtholog
Ensembl Genes ENSMUSG00000017188 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000017332 ENTREZGENE
  ENSMUST00000017332.4 UniProtKB/Swiss-Prot
  ENSMUST00000168089.2 UniProtKB/TrEMBL
InterPro Coa3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Coa3_cc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:52469 UniProtKB/Swiss-Prot
MGD MGI:1098757 ENTREZGENE
NCBI Gene 52469 ENTREZGENE
PANTHER CYTOCHROME C OXIDASE ASSEMBLY FACTOR 3 HOMOLOG, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CYTOCHROME C OXIDASE ASSEMBLY FACTOR 3, MITOCHONDRIAL UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
Pfam Coiled-coil_56 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Coa3 PhenoGen
UniProt A2A4J6 ENTREZGENE
  COA3_MOUSE UniProtKB/Swiss-Prot
  E9Q6W2 ENTREZGENE, UniProtKB/TrEMBL
  Q9D2R6 ENTREZGENE
UniProt Secondary A2A4J6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-25 Coa3  cytochrome C oxidase assembly factor 3  Ccdc56  coiled-coil domain containing 56  Symbol and/or name change 5135510 APPROVED