Uqcc4 (ubiquinol-cytochrome c reductase complex assembly factor 4) - Rat Genome Database

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Gene: Uqcc4 (ubiquinol-cytochrome c reductase complex assembly factor 4) Rattus norvegicus
Analyze
Symbol: Uqcc4
Name: ubiquinol-cytochrome c reductase complex assembly factor 4
RGD ID: 1565784
Description: Predicted to be involved in mitochondrial respiratory chain complex III assembly. Predicted to be located in mitochondrial inner membrane. Predicted to be part of respirasome. Orthologous to human UQCC4 (ubiquinol-cytochrome c reductase complex assembly factor 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C10h16orf91; hypothetical protein LOC497874; LOC497874; RGD1565784; similar to human chromosome 16 open reading frame 91; uncharacterized protein LOC497874
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81014,706,720 - 14,708,022 (+)NCBIGRCr8
mRatBN7.21014,202,217 - 14,203,519 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,202,243 - 14,204,029 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1018,943,286 - 18,944,588 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01018,432,146 - 18,433,448 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01013,931,362 - 13,932,664 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01014,543,196 - 14,544,498 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1014,543,200 - 14,545,000 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,358,284 - 14,359,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,429,984 - 14,431,286 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1013,874,939 - 13,876,241 (+)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

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

Genomics

Comparative Map Data
Uqcc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81014,706,720 - 14,708,022 (+)NCBIGRCr8
mRatBN7.21014,202,217 - 14,203,519 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,202,243 - 14,204,029 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1018,943,286 - 18,944,588 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01018,432,146 - 18,433,448 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01013,931,362 - 13,932,664 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01014,543,196 - 14,544,498 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1014,543,200 - 14,545,000 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,358,284 - 14,359,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,429,984 - 14,431,286 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1013,874,939 - 13,876,241 (+)NCBICelera
Cytogenetic Map10q12NCBI
UQCC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38161,419,752 - 1,420,747 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl161,419,752 - 1,420,756 (-)EnsemblGRCh38hg38GRCh38
GRCh37161,469,753 - 1,470,748 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36161,409,945 - 1,419,346 (-)NCBINCBI36Build 36hg18NCBI36
Celera161,682,542 - 1,691,944 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef161,396,115 - 1,397,171 (-)NCBIHuRef
CHM1_1161,469,680 - 1,470,736 (-)NCBICHM1_1
T2T-CHM13v2.0161,434,364 - 1,435,359 (-)NCBIT2T-CHM13v2.0
Uqcc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391725,403,535 - 25,406,636 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1725,403,528 - 25,406,636 (+)EnsemblGRCm39 Ensembl
GRCm381725,184,561 - 25,187,662 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1725,184,554 - 25,187,662 (+)EnsemblGRCm38mm10GRCm38
MGSCv371725,321,506 - 25,324,607 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361724,911,856 - 24,915,262 (+)NCBIMGSCv36mm8
Celera1725,714,046 - 25,717,160 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.53NCBI
LOC102009553
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544215,820,753 - 15,825,390 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544215,820,684 - 15,821,784 (+)NCBIChiLan1.0ChiLan1.0
LOC100990880
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2181,681,724 - 1,683,312 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1165,469,079 - 5,470,678 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01639,543 - 41,134 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1161,474,158 - 1,475,205 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl161,474,158 - 1,475,201 (-)Ensemblpanpan1.1panPan2
UQCC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1639,372,695 - 39,375,081 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl639,373,227 - 39,373,821 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha640,641,272 - 40,643,057 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0639,719,554 - 39,721,339 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl639,719,638 - 39,721,294 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1639,396,529 - 39,398,314 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0639,368,997 - 39,370,783 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0639,847,422 - 39,849,208 (+)NCBIUU_Cfam_GSD_1.0
CUNH16orf91
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344104,224,451 - 104,225,429 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366942,483,632 - 2,485,712 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366942,484,092 - 2,485,012 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UQCC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl340,440,051 - 40,441,281 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1340,439,419 - 40,441,209 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2342,082,443 - 42,083,457 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CUNH16orf91
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.151,308,401 - 1,309,898 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606829,777,074 - 29,778,158 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH16orf91
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249132,118,207 - 2,119,306 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249132,117,412 - 2,119,350 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Uqcc4
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:278
Count of miRNA genes:212
Interacting mature miRNAs:228
Transcripts:ENSRNOT00000047111
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
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat

Markers in Region
RH139276  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21014,202,888 - 14,203,077 (+)MAPPERmRatBN7.2
Rnor_6.01014,543,868 - 14,544,056NCBIRnor6.0
Rnor_5.01014,358,956 - 14,359,144UniSTSRnor5.0
RGSC_v3.41014,430,656 - 14,430,844UniSTSRGSC3.4
Celera1013,875,611 - 13,875,799UniSTS
Cytogenetic Map10q12UniSTS


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 37 57 41 19 41 8 11 74 35 35 11 8
Low 6 6
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000047111   ⟹   ENSRNOP00000040141
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1014,202,243 - 14,204,029 (+)Ensembl
Rnor_6.0 Ensembl1014,543,200 - 14,545,000 (+)Ensembl
RefSeq Acc Id: NM_001109028   ⟹   NP_001102498
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81014,706,720 - 14,708,022 (+)NCBI
mRatBN7.21014,202,217 - 14,203,519 (+)NCBI
Rnor_6.01014,543,196 - 14,544,498 (+)NCBI
Rnor_5.01014,358,284 - 14,359,586 (+)NCBI
RGSC_v3.41014,429,984 - 14,431,286 (+)RGD
Celera1013,874,939 - 13,876,241 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102498 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM03908 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000040141.3
RefSeq Acc Id: NP_001102498   ⟸   NM_001109028
- UniProtKB: D4ACY1 (UniProtKB/TrEMBL),   A6HD03 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000040141   ⟸   ENSRNOT00000047111

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ACY1-F1-model_v2 AlphaFold D4ACY1 1-136 view protein structure

Transcriptome

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

Promoters
RGD ID:13697043
Promoter ID:EPDNEW_R7568
Type:multiple initiation site
Name:RGD1565784_1
Description:RGD1565784
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_6.01014,543,215 - 14,543,275EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565784 AgrOrtholog
BioCyc Gene G2FUF-25801 BioCyc
Ensembl Genes ENSRNOG00000029415 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047111.5 UniProtKB/TrEMBL
InterPro CCSMST1 UniProtKB/TrEMBL
  CCSMST1_fam UniProtKB/TrEMBL
KEGG Report rno:497874 UniProtKB/TrEMBL
NCBI Gene 497874 ENTREZGENE
PANTHER PROTEIN CCSMST1 UniProtKB/TrEMBL
  PTHR35268 UniProtKB/TrEMBL
Pfam CCSMST1 UniProtKB/TrEMBL
PhenoGen Uqcc4 PhenoGen
PRINTS CCSMST1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000029415 RatGTEx
UniProt A6HD03 ENTREZGENE, UniProtKB/TrEMBL
  D4ACY1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-10-18 Uqcc4  ubiquinol-cytochrome c reductase complex assembly factor 4  C10h16orf91  similar to human chromosome 16 open reading frame 91  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-08-02 C10h16orf91  similar to human chromosome 16 open reading frame 91  RGD1565784  RGD1565784  Name and Symbol changed 629549 APPROVED
2008-04-30 RGD1565784  RGD1565784   RGD1565784_predicted  RGD1565784 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565784_predicted  RGD1565784 (predicted)  LOC497874  LOC497874  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC497874  LOC497874      Symbol and Name status set to provisional 70820 PROVISIONAL