Noc2l (NOC2-like nucleolar associated transcriptional repressor) - Rat Genome Database

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Gene: Noc2l (NOC2-like nucleolar associated transcriptional repressor) Rattus norvegicus
Analyze
Symbol: Noc2l
Name: NOC2-like nucleolar associated transcriptional repressor
RGD ID: 1309387
Description: Predicted to enable several functions, including histone binding activity; nucleosome binding activity; and transcription corepressor activity. Predicted to be involved in several processes, including cellular response to UV; negative regulation of apoptotic process; and regulation of gene expression. Predicted to be located in chromosome; cytosol; and nucleus. Predicted to be part of Noc1p-Noc2p complex and Noc2p-Noc3p complex. Predicted to be active in nucleolus and nucleoplasm. Orthologous to human NOC2L (NOC2 like nucleolar associated transcriptional repressor); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC313777; MGC124822; nucleolar complex associated 2 homolog; nucleolar complex associated 2 homolog (S. cerevisiae); nucleolar complex protein 2 homolog; RGD1309387; similar to cDNA sequence AF155546
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
GRCr85172,102,369 - 172,114,168 (+)NCBIGRCr8
mRatBN7.25166,820,150 - 166,831,949 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,820,161 - 166,831,949 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,522,246 - 169,534,087 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,343,630 - 171,355,471 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,306,190 - 171,318,031 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,659,796 - 173,672,699 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,660,921 - 173,672,459 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05177,134,961 - 177,146,741 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45173,070,800 - 173,082,339 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15173,081,292 - 173,092,744 (+)NCBI
Celera5165,022,016 - 165,033,552 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromosome  (IEA,ISO)
cytosol  (IEA,ISO)
Noc1p-Noc2p complex  (IBA)
Noc2p-Noc3p complex  (IBA)
nucleolus  (IBA,ISO)
nucleoplasm  (IBA,ISO)
nucleus  (ISO)

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. 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
Additional References at PubMed
PMID:12477932   PMID:16322561   PMID:20123734   PMID:20959462   PMID:22658674   PMID:22681889  


Genomics

Comparative Map Data
Noc2l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85172,102,369 - 172,114,168 (+)NCBIGRCr8
mRatBN7.25166,820,150 - 166,831,949 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,820,161 - 166,831,949 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,522,246 - 169,534,087 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,343,630 - 171,355,471 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,306,190 - 171,318,031 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,659,796 - 173,672,699 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,660,921 - 173,672,459 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05177,134,961 - 177,146,741 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45173,070,800 - 173,082,339 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15173,081,292 - 173,092,744 (+)NCBI
Celera5165,022,016 - 165,033,552 (+)NCBICelera
Cytogenetic Map5q36NCBI
NOC2L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381944,203 - 959,256 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1944,203 - 959,309 (-)EnsemblGRCh38hg38GRCh38
GRCh371879,583 - 894,636 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361869,446 - 884,542 (-)NCBINCBI36Build 36hg18NCBI36
Celera11,697,120 - 1,712,216 (+)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1149,092 - 164,231 (-)NCBIHuRef
CHM1_11866,619 - 881,719 (-)NCBICHM1_1
T2T-CHM13v2.01372,945 - 388,041 (-)NCBIT2T-CHM13v2.0
Noc2l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394156,319,112 - 156,332,078 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4156,320,376 - 156,332,073 (+)EnsemblGRCm39 Ensembl
GRCm384156,234,655 - 156,247,616 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4156,235,919 - 156,247,616 (+)EnsemblGRCm38mm10GRCm38
MGSCv374155,610,073 - 155,610,501 (+)MERGEGRCm37MGSCv37mm9NCBIm37
Celera4158,492,546 - 158,504,116 (+)NCBICelera
Cytogenetic Map4E2NCBI
Noc2l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,751,053 - 9,767,104 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,750,969 - 9,763,622 (+)NCBIChiLan1.0ChiLan1.0
NOC2L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21227,303,323 - 227,319,870 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11226,000,430 - 226,016,978 (+)NCBINHGRI_mPanPan1
PanPan1.11843,062 - 855,954 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1843,551 - 857,535 (-)Ensemblpanpan1.1panPan2
NOC2L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,172,399 - 56,185,993 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,172,446 - 56,185,932 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,250,122 - 56,264,043 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,375,357 - 56,389,265 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1556,366,444 - 56,380,373 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,258,379 - 56,272,310 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0556,648,393 - 56,662,328 (-)NCBIUU_Cfam_GSD_1.0
Noc2l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,367,794 - 27,378,861 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367372,087,158 - 2,098,156 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367372,087,123 - 2,098,153 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NOC2L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,307,695 - 63,335,201 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,307,703 - 63,320,799 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2657,886,074 - 57,898,154 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NOC2L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120130,473,526 - 130,488,570 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20130,473,547 - 130,490,907 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605435,102,532 - 35,119,074 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Noc2l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,551,462 - 8,563,529 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248188,551,379 - 8,563,760 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Noc2l
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:48
Count of miRNA genes:47
Interacting mature miRNAs:48
Transcripts:ENSRNOT00000066561
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
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat

Markers in Region
RH131817  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25166,831,699 - 166,831,880 (+)MAPPERmRatBN7.2
Rnor_6.05173,672,450 - 173,672,630NCBIRnor6.0
Rnor_5.05177,146,490 - 177,146,670UniSTSRnor5.0
RGSC_v3.45173,082,329 - 173,082,509UniSTSRGSC3.4
Celera5165,033,542 - 165,033,722UniSTS
RH 3.4 Map51165.7UniSTS
Cytogenetic Map5q36UniSTS


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 35 48 33 19 33 3 72 30 41 11
Low 8 9 8 8 8 8 2 5 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066561   ⟹   ENSRNOP00000059995
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5166,820,161 - 166,831,949 (+)Ensembl
Rnor_6.0 Ensembl5173,660,921 - 173,672,459 (+)Ensembl
RefSeq Acc Id: NM_001033897   ⟹   NP_001029069
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85172,102,369 - 172,114,168 (+)NCBI
mRatBN7.25166,820,150 - 166,831,949 (+)NCBI
Rnor_6.05173,660,921 - 173,672,460 (+)NCBI
Rnor_5.05177,134,961 - 177,146,741 (+)NCBI
RGSC_v3.45173,070,800 - 173,082,339 (+)RGD
Celera5165,022,016 - 165,033,552 (+)RGD
Sequence:
RefSeq Acc Id: NM_001399191   ⟹   NP_001386120
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85172,102,369 - 172,114,168 (+)NCBI
mRatBN7.25166,820,150 - 166,831,949 (+)NCBI
RefSeq Acc Id: NR_174167
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85172,102,369 - 172,114,168 (+)NCBI
mRatBN7.25166,820,150 - 166,831,949 (+)NCBI
RefSeq Acc Id: NR_174168
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85172,102,369 - 172,114,168 (+)NCBI
mRatBN7.25166,820,150 - 166,831,949 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001029069 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386120 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI01912 (Get FASTA)   NCBI Sequence Viewer  
  EDL81374 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000059995
  ENSRNOP00000059995.2
Reference Protein Sequences
RefSeq Acc Id: NP_001029069   ⟸   NM_001033897
- Peptide Label: isoform 2 precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000059995   ⟸   ENSRNOT00000066561
RefSeq Acc Id: NP_001386120   ⟸   NM_001399191
- Peptide Label: isoform 1
- UniProtKB: E9PTF3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PTF3-F1-model_v2 AlphaFold E9PTF3 1-644 view protein structure

Transcriptome

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

Promoters
RGD ID:13694349
Promoter ID:EPDNEW_R4873
Type:multiple initiation site
Name:Noc2l_1
Description:NOC2-like nucleolar associated transcriptional repressor
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_6.05173,660,911 - 173,660,971EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309387 AgrOrtholog
BioCyc Gene G2FUF-38855 BioCyc
Ensembl Genes ENSRNOG00000021392 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066561 ENTREZGENE
  ENSRNOT00000066561.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7934070 IMAGE-MGC_LOAD
InterPro ARM-type_fold UniProtKB/TrEMBL
  UPF0120 UniProtKB/TrEMBL
KEGG Report rno:313777 UniProtKB/TrEMBL
MGC_CLONE MGC:124822 IMAGE-MGC_LOAD
NCBI Gene 313777 ENTREZGENE
PANTHER NUCLEOLAR COMPLEX PROTEIN 2 HOMOLOG UniProtKB/TrEMBL
  UPF0120 UniProtKB/TrEMBL
Pfam Noc2 UniProtKB/TrEMBL
PhenoGen Noc2l PhenoGen
RatGTEx ENSRNOG00000021392 RatGTEx
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt E9PTF3 ENTREZGENE, UniProtKB/TrEMBL
  Q3T1I0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-09 Noc2l  NOC2-like nucleolar associated transcriptional repressor  Noc2l  nucleolar complex associated 2 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-15 Noc2l  nucleolar complex associated 2 homolog (S. cerevisiae)  RGD1309387  similar to cDNA sequence AF155546  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1309387  similar to cDNA sequence AF155546  RGD1309387_predicted  similar to cDNA sequence AF155546 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1309387_predicted  similar to cDNA sequence AF155546 (predicted)  LOC313777_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC313777_predicted  similar to cDNA sequence AF155546 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL