Apoo (apolipoprotein O) - Rat Genome Database

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Gene: Apoo (apolipoprotein O) Rattus norvegicus
Analyze
Symbol: Apoo
Name: apolipoprotein O
RGD ID: 1565289
Description: Predicted to be involved in cristae formation. Predicted to be located in several cellular components, including Golgi membrane; endoplasmic reticulum membrane; and mitochondrial inner membrane. Predicted to be part of MICOS complex. Orthologous to human APOO (apolipoprotein O); PARTICIPATES IN mitochondrial protein import pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC363474; MICOS complex subunit MIC26; RGD1565289; similar to RIKEN cDNA 0610008C08
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X63,151,736 - 63,256,696 (+)NCBIGRCr8
mRatBN7.2X59,157,971 - 59,262,940 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX59,158,049 - 59,262,940 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX60,611,279 - 60,714,042 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X64,112,402 - 64,215,169 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X61,657,121 - 61,768,684 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X63,521,033 - 63,625,134 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX63,520,991 - 63,625,134 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X64,430,860 - 64,534,961 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X81,784,706 - 81,889,551 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX59,587,672 - 59,692,328 (+)NCBICelera
Cytogenetic MapXq22NCBI
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

Molecular Pathway Annotations     Click to see Annotation Detail View
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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
5. Mitofilin complexes: conserved organizers of mitochondrial membrane architecture. Zerbes RM, etal., Biol Chem. 2012 Nov;393(11):1247-61. doi: 10.1515/hsz-2012-0239.
Additional References at PubMed
PMID:20833797   PMID:21700703   PMID:24743151   PMID:25764979   PMID:25781180   PMID:25997101  


Genomics

Comparative Map Data
Apoo
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X63,151,736 - 63,256,696 (+)NCBIGRCr8
mRatBN7.2X59,157,971 - 59,262,940 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX59,158,049 - 59,262,940 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX60,611,279 - 60,714,042 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X64,112,402 - 64,215,169 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X61,657,121 - 61,768,684 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X63,521,033 - 63,625,134 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX63,520,991 - 63,625,134 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X64,430,860 - 64,534,961 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X81,784,706 - 81,889,551 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX59,587,672 - 59,692,328 (+)NCBICelera
Cytogenetic MapXq22NCBI
APOO
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X23,833,353 - 23,907,938 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX23,833,353 - 23,907,938 (-)EnsemblGRCh38hg38GRCh38
GRCh37X23,851,470 - 23,926,055 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X23,761,391 - 23,835,958 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX27,970,217 - 28,043,546 (-)NCBICelera
Cytogenetic MapXp22.11NCBI
HuRefX21,597,250 - 21,670,104 (-)NCBIHuRef
CHM1_1X23,882,370 - 23,957,282 (-)NCBICHM1_1
T2T-CHM13v2.0X23,417,034 - 23,491,615 (-)NCBIT2T-CHM13v2.0
Apoo
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X93,410,615 - 93,460,699 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX93,410,723 - 93,460,699 (+)EnsemblGRCm39 Ensembl
GRCm38X94,367,010 - 94,417,093 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX94,367,117 - 94,417,093 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X91,612,449 - 91,662,429 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X90,619,873 - 90,669,806 (+)NCBIMGSCv36mm8
CeleraX81,307,125 - 81,343,955 (+)NCBICelera
Cytogenetic MapXC3NCBI
cM MapX41.56NCBI
Apoo
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555094,255,030 - 4,325,568 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555094,256,834 - 4,325,086 (-)NCBIChiLan1.0ChiLan1.0
APOO
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X25,634,548 - 25,708,412 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X25,637,937 - 25,711,738 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X16,432,822 - 16,506,668 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X23,807,998 - 23,879,906 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX23,806,477 - 23,880,518 (-)Ensemblpanpan1.1panPan2
APOO
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X19,501,849 - 19,555,425 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X19,456,861 - 19,510,690 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX19,456,893 - 19,510,486 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X19,496,013 - 19,549,863 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X19,529,419 - 19,583,232 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X19,585,588 - 19,639,345 (-)NCBIUU_Cfam_GSD_1.0
Apoo
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X12,401,975 - 12,490,174 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936624667,659 - 754,944 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APOO
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX19,953,158 - 20,017,727 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X19,953,147 - 20,017,784 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X21,323,359 - 21,366,041 (-)NCBISscrofa10.2Sscrofa10.2susScr3
APOO
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X22,295,822 - 22,377,670 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX22,295,037 - 22,377,668 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605624,181,041 - 24,254,590 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Apoo
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624897228,049 - 299,069 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624897228,324 - 299,017 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Apoo
697 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:27
Interacting mature miRNAs:27
Transcripts:ENSRNOT00000071590, ENSRNOT00000073955
Prediction methods:Miranda, Pita, 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
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
70221Bp56Blood pressure QTL 564.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X5704214165612192Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat

Markers in Region
RH133416  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X59,175,352 - 59,175,547 (+)MAPPERmRatBN7.2
Rnor_6.0X63,538,288 - 63,538,482NCBIRnor6.0
Rnor_5.0X64,448,115 - 64,448,309UniSTSRnor5.0
RGSC_v3.4X81,802,060 - 81,802,254UniSTSRGSC3.4
CeleraX59,604,914 - 59,605,108UniSTS
Cytogenetic MapXq31UniSTS
Cytogenetic Map16q11UniSTS
BE104365  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X59,182,749 - 59,182,938 (+)MAPPERmRatBN7.2
Rnor_6.0X63,545,835 - 63,546,023NCBIRnor6.0
Rnor_5.0X64,455,662 - 64,455,850UniSTSRnor5.0
RGSC_v3.4X81,809,457 - 81,809,645UniSTSRGSC3.4
CeleraX59,612,311 - 59,612,499UniSTS
Cytogenetic MapXq31UniSTS


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 54 38 17 38 8 11 74 35 39 11 8
Low 3 3 2 3 2
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000071590   ⟹   ENSRNOP00000065539
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX59,158,049 - 59,262,934 (+)Ensembl
Rnor_6.0 EnsemblX63,520,991 - 63,625,134 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000073955   ⟹   ENSRNOP00000065393
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX59,178,973 - 59,241,290 (+)Ensembl
Rnor_6.0 EnsemblX63,542,191 - 63,625,128 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098632   ⟹   ENSRNOP00000089406
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX59,178,785 - 59,262,940 (+)Ensembl
RefSeq Acc Id: NM_001199178   ⟹   NP_001186107
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X63,151,856 - 63,256,696 (+)NCBI
mRatBN7.2X59,158,091 - 59,262,940 (+)NCBI
Rnor_6.0X63,521,033 - 63,625,134 (+)NCBI
Rnor_5.0X64,430,860 - 64,534,961 (+)NCBI
CeleraX59,587,672 - 59,692,328 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039099893   ⟹   XP_038955821
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X63,151,862 - 63,256,696 (+)NCBI
mRatBN7.2X59,158,060 - 59,262,940 (+)NCBI
RefSeq Acc Id: XM_039099894   ⟹   XP_038955822
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X63,151,736 - 63,180,168 (+)NCBI
mRatBN7.2X59,157,971 - 59,183,849 (+)NCBI
RefSeq Acc Id: XM_039099895   ⟹   XP_038955823
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X63,151,737 - 63,223,909 (+)NCBI
mRatBN7.2X59,157,972 - 59,230,146 (+)NCBI
RefSeq Acc Id: NP_001186107   ⟸   NM_001199178
- UniProtKB: M0R7V3 (UniProtKB/TrEMBL),   A0A8I6A768 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065393   ⟸   ENSRNOT00000073955
RefSeq Acc Id: ENSRNOP00000065539   ⟸   ENSRNOT00000071590
RefSeq Acc Id: XP_038955822   ⟸   XM_039099894
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955823   ⟸   XM_039099895
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038955821   ⟸   XM_039099893
- Peptide Label: isoform X1
- UniProtKB: A6IQ10 (UniProtKB/TrEMBL),   A0A8I6A768 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000089406   ⟸   ENSRNOT00000098632

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R7V3-F1-model_v2 AlphaFold M0R7V3 1-198 view protein structure

Transcriptome

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

Promoters
RGD ID:13701841
Promoter ID:EPDNEW_R12365
Type:multiple initiation site
Name:Apoo_1
Description:apolipoprotein O
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_6.0X63,521,017 - 63,521,077EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565289 AgrOrtholog
BioCyc Gene G2FUF-2240 BioCyc
Ensembl Genes ENSRNOG00000046918 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071590 ENTREZGENE
  ENSRNOT00000071590.4 UniProtKB/TrEMBL
  ENSRNOT00000073955.4 UniProtKB/TrEMBL
  ENSRNOT00000098632.1 UniProtKB/TrEMBL
InterPro Apolipoprotein_O UniProtKB/TrEMBL
  MIC26/MIC27_animal UniProtKB/TrEMBL
KEGG Report rno:363474 UniProtKB/TrEMBL
NCBI Gene 363474 ENTREZGENE
PANTHER MICOS COMPLEX SUBUNIT MIC26 UniProtKB/TrEMBL
  PTHR14564 UniProtKB/TrEMBL
Pfam ApoO UniProtKB/TrEMBL
PhenoGen Apoo PhenoGen
RatGTEx ENSRNOG00000046918 RatGTEx
UniProt A0A8I6A768 ENTREZGENE, UniProtKB/TrEMBL
  A6IQ10 ENTREZGENE, UniProtKB/TrEMBL
  M0R7G4_RAT UniProtKB/TrEMBL
  M0R7V3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-05 Apoo  apolipoprotein O  RGD1565289  similar to RIKEN cDNA 0610008C08  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565289  similar to RIKEN cDNA 0610008C08   RGD1565289_predicted  similar to RIKEN cDNA 0610008C08 (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 RGD1565289_predicted  similar to RIKEN cDNA 0610008C08 (predicted)  LOC683412  hypothetical protein LOC683412  Data merged from RGD:1586878 1643240 APPROVED
2006-11-19 LOC683412  hypothetical protein LOC683412      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1565289_predicted  similar to RIKEN cDNA 0610008C08 (predicted)  LOC363474  similar to RIKEN cDNA 0610008C08  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC363474  similar to RIKEN cDNA 0610008C08      Symbol and Name status set to provisional 70820 PROVISIONAL