Sco2 (SCO2 cytochrome c oxidase assembly protein) - Rat Genome Database

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Gene: Sco2 (SCO2 cytochrome c oxidase assembly protein) Mus musculus
Analyze
Symbol: Sco2
Name: SCO2 cytochrome c oxidase assembly protein
RGD ID: 2302344
MGI Page MGI
Description: Predicted to enable protein-disulfide reductase activity. Acts upstream of or within several processes, including copper ion homeostasis; respiratory chain complex IV assembly; and response to activity. Located in mitochondrion. Is expressed in several structures, including alimentary system; aorta; blastocyst; gonad; and hemolymphoid system gland. Used to study cytochrome-c oxidase deficiency disease. Human ortholog(s) of this gene implicated in cytochrome-c oxidase deficiency disease; hypertrophic cardiomyopathy; mitochondrial complex IV deficiency nuclear type 2; and myopia. Orthologous to human SCO2 (synthesis of cytochrome C oxidase 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: MGC28479; protein SCO2 homolog, mitochondrial; SCO cytochrome oxidase deficient homolog 2
RGD Orthologs
Human
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Gm35687  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391589,255,833 - 89,258,094 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1589,255,840 - 89,258,049 (-)EnsemblGRCm39 Ensembl
GRCm381589,371,630 - 89,373,891 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1589,371,637 - 89,373,846 (-)EnsemblGRCm38mm10GRCm38
MGSCv371589,202,068 - 89,204,249 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1591,500,778 - 91,502,959 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1544.85NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
2. Mouse MP Annotation Import Pipeline RGD automated import pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14681479   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:16728594  
PMID:19837698   PMID:20864674   PMID:21723506   PMID:21750704   PMID:21873635   PMID:24814483   PMID:25792727   PMID:26334721   PMID:26676373   PMID:26752519   PMID:28428045   PMID:30550785  


Genomics

Comparative Map Data
Sco2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391589,255,833 - 89,258,094 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1589,255,840 - 89,258,049 (-)EnsemblGRCm39 Ensembl
GRCm381589,371,630 - 89,373,891 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1589,371,637 - 89,373,846 (-)EnsemblGRCm38mm10GRCm38
MGSCv371589,202,068 - 89,204,249 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1591,500,778 - 91,502,959 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1544.85NCBI
SCO2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382250,523,568 - 50,526,442 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2250,523,568 - 50,526,461 (-)EnsemblGRCh38hg38GRCh38
GRCh372250,961,997 - 50,964,871 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362249,308,863 - 49,310,900 (-)NCBINCBI36Build 36hg18NCBI36
Build 342249,252,142 - 49,254,116NCBI
Celera2234,838,024 - 34,840,895 (-)NCBICelera
Cytogenetic Map22q13.33NCBI
HuRef2233,853,015 - 33,855,886 (-)NCBIHuRef
CHM1_12250,920,734 - 50,923,605 (-)NCBICHM1_1
T2T-CHM13v2.02251,034,133 - 51,037,007 (-)NCBIT2T-CHM13v2.0
LOC106146232
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541333,503,882 - 33,505,417 (-)NCBIChiLan1.0ChiLan1.0
LOC100976808
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22360,443,429 - 60,444,452 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12263,134,243 - 63,135,270 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02230,769,899 - 30,772,008 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12249,879,824 - 49,881,834 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2249,879,867 - 49,880,667 (-)Ensemblpanpan1.1panPan2
SCO2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11016,783,116 - 16,790,011 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1016,788,287 - 16,790,247 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1016,760,885 - 16,767,714 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01017,509,646 - 17,516,477 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11017,233,936 - 17,240,764 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01017,557,049 - 17,563,783 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01017,689,178 - 17,696,008 (+)NCBIUU_Cfam_GSD_1.0
LOC101962609
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945319,260 - 320,804 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936629318,581 - 320,795 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936629318,581 - 320,804 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCO2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl5220,814 - 225,307 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.15220,801 - 222,678 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.25110,557,622 - 110,559,499 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SCO2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11932,995,153 - 32,997,249 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1932,995,196 - 32,995,996 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604592,345,404 - 92,347,449 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC106007592
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624752256,376 - 257,825 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624752256,243 - 257,829 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sco2
44 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:110
Count of miRNA genes:101
Interacting mature miRNAs:109
Transcripts:ENSMUST00000167643
Prediction methods:Miranda, Rnahybrid, Targetscan
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
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
38501067Tip3_mtuberculosis immunophenotype 3, IFN-g level (mouse)155356339689584203Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
1357407Pfat4_mpredicted fat percentage 4 (mouse)8.6Body fat amountpredicted fat percentage155711700591117153Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585901546104073951Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578601103102901704Mouse
1300800Ses3_msalmonella enteritidis susceptibility 3 (mouse)Not determined155711700591117153Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78601103102901704Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585896437104073951Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585896437104073951Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567270698101270847Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
1301171Brm2_mbrachyury modifier 2 (mouse)Not determined156552537699525499Mouse
12880420V25Dq8_mvitamin D inactive form serum level QTL 8 (mouse)156158420095584200Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
26884402Cvht9_mcranial vault height 9, 16 week (mouse)154216339695497881Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
1558845Alprf_malcohol preference (mouse)Not determined158734927190274568Mouse
1301119Drb7_mdopamine receptor binding 7 (mouse)Not determined156533657899341028Mouse
12738413Lfibq10_mliver fibrosis QTL 10 (mouse)158784208589927286Mouse
4141135Cia35_mcollagen induced arthritis 35 (mouse)Not determined156481182698811946Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
1301601Faq9_mfluctuating asymmetry QTL 9 (mouse)Not determined156316390397163995Mouse
1301472Pain1_mpain 1 (mouse)Not determined157532084690813185Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
26884397Humsd5_mhumerus midshaft diameter 5, 10 week (mouse)154836339698397881Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585896437104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse

Markers in Region
AW743235  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381589,375,019 - 89,375,127UniSTSGRCm38
MGSCv371589,205,450 - 89,205,558UniSTSGRCm37
Celera1591,504,160 - 91,504,268UniSTS
Cytogenetic Map15F1UniSTS
cM Map1551.6UniSTS
Whitehead/MRC_RH15819.69UniSTS
RH136025  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381589,372,063 - 89,372,248UniSTSGRCm38
MGSCv371589,202,494 - 89,202,679UniSTSGRCm37
Celera1591,501,204 - 91,501,389UniSTS
Cytogenetic Map15F1UniSTS
Cytogenetic Map15E3UniSTS
cM Map1551.6UniSTS
cM Map1549.9UniSTS
RH128722  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381589,371,377 - 89,371,578UniSTSGRCm38
MGSCv371589,201,808 - 89,202,009UniSTSGRCm37
Celera1591,500,518 - 91,500,719UniSTS
Cytogenetic Map15E3UniSTS
cM Map1549.9UniSTS
D15Ertd785e  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381589,372,585 - 89,372,817UniSTSGRCm38
MGSCv371589,203,016 - 89,203,248UniSTSGRCm37
Celera1591,501,726 - 91,501,958UniSTS
Cytogenetic Map15F1UniSTS
Cytogenetic Map15E3UniSTS
cM Map1549.9UniSTS
Tymp  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15F1UniSTS
cM Map1544.86UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000167643   ⟹   ENSMUSP00000131943
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1589,255,840 - 89,258,021 (-)Ensembl
GRCm38.p6 Ensembl1589,371,637 - 89,373,818 (-)Ensembl
Ensembl Acc Id: ENSMUST00000228977   ⟹   ENSMUSP00000155150
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1589,255,843 - 89,258,049 (-)Ensembl
GRCm38.p6 Ensembl1589,371,640 - 89,373,846 (-)Ensembl
RefSeq Acc Id: NM_001111288   ⟹   NP_001104758
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391589,255,833 - 89,258,094 (-)NCBI
GRCm381589,371,630 - 89,373,891 (-)NCBI
MGSCv371589,202,068 - 89,204,249 (-)RGD
Celera1591,500,778 - 91,502,959 (-)RGD
cM Map15 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001104758 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH19554 (Get FASTA)   NCBI Sequence Viewer  
  BAB28986 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000131943
  ENSMUSP00000131943.3
  ENSMUSP00000155150.2
GenBank Protein Q8VCL2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001104758   ⟸   NM_001111288
- UniProtKB: Q8VCL2 (UniProtKB/Swiss-Prot),   Q9D6E8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000131943   ⟸   ENSMUST00000167643
Ensembl Acc Id: ENSMUSP00000155150   ⟸   ENSMUST00000228977
Protein Domains
Thioredoxin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VCL2-F1-model_v2 AlphaFold Q8VCL2 1-255 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3818630 AgrOrtholog
Ensembl Genes ENSMUSG00000091780 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000167643 ENTREZGENE
  ENSMUST00000167643.4 UniProtKB/Swiss-Prot
  ENSMUST00000228977.2 UniProtKB/Swiss-Prot
Gene3D-CATH Glutaredoxin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro SCO1/SenC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Synth_of_cyt-c-oxidase_Sco1/2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thioredoxin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thioredoxin_domain UniProtKB/Swiss-Prot
KEGG Report mmu:100126824 UniProtKB/Swiss-Prot
MGD MGI:3818630 ENTREZGENE
NCBI Gene 100126824 ENTREZGENE
PANTHER PROTEIN SCO2 HOMOLOG, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12151 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SCO1-SenC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sco2 PhenoGen
PIRSF SCO1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE THIOREDOXIN_2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52833 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q8VCL2 ENTREZGENE
  Q9D6E8 ENTREZGENE, UniProtKB/TrEMBL
  SCO2_MOUSE UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-29 Sco2  SCO2 cytochrome c oxidase assembly protein    SCO cytochrome oxidase deficient homolog 2 (yeast)  Symbol and/or name change 5135510 APPROVED