Ncl (nucleolin) - Rat Genome Database

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Gene: Ncl (nucleolin) Rattus norvegicus
Analyze
Symbol: Ncl
Name: nucleolin
RGD ID: 3153
Description: Enables several functions, including ErbB-4 class receptor binding activity; calcium ion binding activity; and nucleic acid binding activity. Involved in several processes, including cellular response to lipopolysaccharide; liver regeneration; and regulation of gene expression. Located in cell surface; dense fibrillar component; and fibrillar center. Orthologous to human NCL (nucleolin); PARTICIPATES IN RNA polymerase I transcription pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC93572; nucleolin-like protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Ncl-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,447,559 - 94,456,083 (-)NCBIGRCr8
mRatBN7.2986,999,588 - 87,008,112 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,998,019 - 87,008,136 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx995,417,234 - 95,425,754 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,546,259 - 100,554,894 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,927,937 - 98,936,461 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,369,119 - 93,377,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,368,932 - 93,377,643 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,097,881 - 93,106,405 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,112,752 - 85,121,276 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1985,296,294 - 85,304,569 (-)NCBI
Celera984,415,242 - 84,423,766 (-)NCBICelera
Cytogenetic Map9q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
(Z)-3-butylidenephthalide  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3',5'-cyclic UMP  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP)
4-vinylcyclohexene dioxide  (ISO)
5-fluorouracil  (ISO)
acrolein  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP,ISO)
alpha-hexachlorocyclohexane  (EXP)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amsacrine  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenic trichloride  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
Brodifacoum  (EXP)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
cannabidiol  (ISO)
carbamazepine  (EXP)
carbon nanotube  (ISO)
chlormequat chloride  (EXP)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (EXP,ISO)
clobetasol  (ISO)
clofibric acid  (EXP)
clozapine  (ISO)
cobalt dichloride  (ISO)
coumarin  (ISO)
CU-O LINKAGE  (ISO)
Cuprizon  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
diarsenic trioxide  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dopamine  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (EXP,ISO)
felbamate  (EXP)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
gabapentin  (EXP)
gentamycin  (EXP)
haloperidol  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (EXP,ISO)
methidathion  (ISO)
methotrexate  (ISO)
methoxychlor  (ISO)
methyl methanesulfonate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP,ISO)
phenytoin  (EXP)
pirinixic acid  (EXP,ISO)
raloxifene  (ISO)
resveratrol  (ISO)
rimonabant  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
Soman  (EXP)
succimer  (ISO)
tanespimycin  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP,ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Nucleolin gene organization in rodents: highly conserved sequences within three of the 13 introns. Bourbon HM and Amalric F, Gene 1990 Apr 16;88(2):187-96.
2. Identification of a novel nucleolin related protein (NRP) gene expressed during rat spermatogenesis. Chathoth KT, etal., BMC Mol Biol. 2009 Jul 1;10:64. doi: 10.1186/1471-2199-10-64.
3. Identification of nucleolin as new ErbB receptors- interacting protein. Di Segni A, etal., PLoS One. 2008 Jun 4;3(6):e2310. doi: 10.1371/journal.pone.0002310.
4. Nucleolin: Dual roles in rDNA chromatin transcription. Durut N and Saez-Vasquez J, Gene. 2014 Sep 16. pii: S0378-1119(14)01049-X. doi: 10.1016/j.gene.2014.09.023.
5. 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.
6. Nucleolin is a calcium-binding protein. Gilchrist JS, etal., J Cell Biochem 2002;85(2):268-78.
7. Association of protein C23 with rapidly labeled nucleolar RNA. Herrera AH and Olson MO, Biochemistry. 1986 Oct 7;25(20):6258-64.
8. Nucleolin protects the heart from ischaemia-reperfusion injury by up-regulating heat shock protein 32. Jiang B, etal., Cardiovasc Res. 2013 Jul 1;99(1):92-101. doi: 10.1093/cvr/cvt085. Epub 2013 Apr 16.
9. Nucleolin/C23 mediates the antiapoptotic effect of heat shock protein 70 during oxidative stress. Jiang B, etal., FEBS J. 2010 Feb;277(3):642-52. doi: 10.1111/j.1742-4658.2009.07510.x. Epub 2009 Dec 29.
10. Identification of novel proteins associated with both alpha-synuclein and DJ-1. Jin J, etal., Mol Cell Proteomics. 2007 May;6(5):845-59. Epub 2006 Jul 18.
11. A 110-kD nuclear shuttling protein, nucleolin, binds to the neurite-promoting IKVAV site of laminin-1. Kibbey MC, etal., J Neurosci Res. 1995 Oct 15;42(3):314-22.
12. Induction of heat shock protein 70 and nucleolin and their intracellular distribution during early stage of liver regeneration. Konishi T, etal., J Biochem. 1995 Jun;117(6):1170-7.
13. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
14. Synaptotagmin 11 interacts with components of the RNA-induced silencing complex RISC in clonal pancreatic beta-cells. Milochau A, etal., FEBS Lett. 2014 Jun 27;588(14):2217-22. doi: 10.1016/j.febslet.2014.05.031. Epub 2014 May 29.
15. Nucleolin binds to a subset of selenoprotein mRNAs and regulates their expression. Miniard AC, etal., Nucleic Acids Res. 2010 Aug;38(14):4807-20. Epub 2010 Apr 12.
16. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. Interaction of nucleolar phosphoprotein C23 with cloned segments of rat ribosomal deoxyribonucleic acid. Olson MO, etal., Biochemistry. 1983 Jul 5;22(14):3345-51.
18. Shuttling protein nucleolin is a microglia receptor for amyloid beta peptide 1-42. Ozawa D, etal., Biol Pharm Bull. 2013;36(10):1587-93. Epub 2013 Aug 3.
19. GOA pipeline RGD automated data pipeline
20. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
21. RNA polymerase I activity is regulated at multiple steps in the transcription cycle: recent insights into factors that influence transcription elongation. Schneider DA Gene. 2012 Feb 10;493(2):176-84. doi: 10.1016/j.gene.2011.08.006. Epub 2011 Aug 26.
22. Nucleolin promotes secondary structure in ribosomal RNA. Sipos K and Olson MO, Biochem Biophys Res Commun. 1991 Jun 14;177(2):673-8.
23. Silver staining, immunofluorescence, and immunoelectron microscopic localization of nucleolar phosphoproteins B23 and C23. Spector DL, etal., Chromosoma. 1984;90(2):139-48.
24. Limited proteolysis of rat liver nucleolin by endogenous proteases: effects of polyamines and histones. Suzuki T, etal., Biochem J. 1993 Jan 1;289 ( Pt 1):109-15.
25. Cell-surface nucleolin is involved in lipopolysaccharide internalization and signalling in alveolar macrophages. Wang Y, etal., Cell Biol Int. 2011 Jul;35(7):677-85. doi: 10.1042/CBI20100625.
26. [Expression of nucleolin in pressure overload-induced cardiac hypertrophy rats]. Yan S, etal., Zhong Nan Da Xue Xue Bao Yi Xue Ban. 2014 Feb;39(2):124-8. doi: 10.11817/j.issn.1672-7347.2014.02.003.
27. Effect of laminin on the nuclear localization of nucleolin in rat intestinal epithelial IEC-6 cells. Yu D, etal., Biochem Biophys Res Commun. 1998 Jun 9;247(1):186-92.
Additional References at PubMed
PMID:2100262   PMID:2906027   PMID:8321232   PMID:8567649   PMID:8702723   PMID:9102301   PMID:12477932   PMID:12944467   PMID:14729462   PMID:15121898   PMID:15364958   PMID:15607978  
PMID:15674325   PMID:15925566   PMID:16213212   PMID:16403913   PMID:16641100   PMID:17289661   PMID:17971306   PMID:18809582   PMID:19393617   PMID:19946888   PMID:20439489   PMID:20458337  
PMID:21575138   PMID:22658674   PMID:22681889   PMID:23161541   PMID:23353999   PMID:23376485   PMID:23712942   PMID:24071584   PMID:24077883   PMID:24442868   PMID:24530304   PMID:25002582  
PMID:25931508   PMID:29968904   PMID:30053369   PMID:30256395   PMID:30720050   PMID:31975412   PMID:35352799  


Genomics

Comparative Map Data
Ncl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,447,559 - 94,456,083 (-)NCBIGRCr8
mRatBN7.2986,999,588 - 87,008,112 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,998,019 - 87,008,136 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx995,417,234 - 95,425,754 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,546,259 - 100,554,894 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,927,937 - 98,936,461 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,369,119 - 93,377,643 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,368,932 - 93,377,643 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0993,097,881 - 93,106,405 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4985,112,752 - 85,121,276 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1985,296,294 - 85,304,569 (-)NCBI
Celera984,415,242 - 84,423,766 (-)NCBICelera
Cytogenetic Map9q35NCBI
NCL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382231,453,531 - 231,464,484 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2231,453,531 - 231,483,641 (-)EnsemblGRCh38hg38GRCh38
GRCh372232,318,242 - 232,329,195 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362232,027,703 - 232,037,449 (-)NCBINCBI36Build 36hg18NCBI36
Build 342232,144,964 - 232,154,710NCBI
Celera2226,095,812 - 226,105,543 (-)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2224,160,942 - 224,170,673 (-)NCBIHuRef
CHM1_12232,325,275 - 232,335,021 (-)NCBICHM1_1
T2T-CHM13v2.02231,937,970 - 231,948,923 (-)NCBIT2T-CHM13v2.0
Ncl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39186,272,441 - 86,287,177 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl186,272,441 - 86,287,122 (-)EnsemblGRCm39 Ensembl
GRCm38186,344,719 - 86,359,455 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl186,344,719 - 86,359,400 (-)EnsemblGRCm38mm10GRCm38
MGSCv37188,241,294 - 88,256,030 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36188,175,890 - 88,190,626 (-)NCBIMGSCv36mm8
Celera189,309,614 - 89,324,350 (-)NCBICelera
Cytogenetic Map1C5NCBI
cM Map143.94NCBI
Ncl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554534,154,627 - 4,164,253 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554534,154,627 - 4,164,253 (+)NCBIChiLan1.0ChiLan1.0
NCL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213134,073,955 - 134,085,192 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B134,088,920 - 134,100,157 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B118,703,148 - 118,712,893 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B237,490,378 - 237,500,193 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B237,490,378 - 237,500,193 (-)Ensemblpanpan1.1panPan2
NCL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12543,330,524 - 43,384,909 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2543,330,799 - 43,384,258 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2543,889,863 - 43,899,381 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02543,588,384 - 43,598,029 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2543,396,286 - 43,598,047 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12543,516,186 - 43,525,614 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02543,359,026 - 43,368,541 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02543,514,740 - 43,524,256 (-)NCBIUU_Cfam_GSD_1.0
NCL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15132,162,516 - 132,174,172 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115132,163,453 - 132,174,214 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215145,945,304 - 145,949,019 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NCL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110117,478,279 - 117,487,810 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604081,960,737 - 81,970,758 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ncl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248434,620,501 - 4,630,521 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ncl
50 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:87
Count of miRNA genes:68
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000024712
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
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)97927151191616855Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97927151191616855Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)98636963192058970Rat

Markers in Region
D9Arb5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2987,008,635 - 87,008,898 (+)MAPPERmRatBN7.2
Rnor_6.0993,378,167 - 93,378,429NCBIRnor6.0
Rnor_5.0993,106,929 - 93,107,191UniSTSRnor5.0
RGSC_v3.4985,121,799 - 85,122,062RGDRGSC3.4
RGSC_v3.4985,121,800 - 85,122,062UniSTSRGSC3.4
RGSC_v3.1985,305,218 - 85,305,481RGD
Celera984,424,290 - 84,424,552UniSTS
RH 2.0 Map9837.5RGD
SHRSP x BN Map956.8299RGD
Cytogenetic Map9q35UniSTS
PMC312758P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2987,008,064 - 87,008,147 (+)MAPPERmRatBN7.2
Rnor_6.0993,377,596 - 93,377,678NCBIRnor6.0
Rnor_5.0993,106,358 - 93,106,440UniSTSRnor5.0
RGSC_v3.4985,121,229 - 85,121,311UniSTSRGSC3.4
Celera984,423,719 - 84,423,801UniSTS
Cytogenetic Map9q35UniSTS
PMC55360P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2987,007,919 - 87,008,113 (+)MAPPERmRatBN7.2
Rnor_6.0993,377,451 - 93,377,644NCBIRnor6.0
Rnor_5.0993,106,213 - 93,106,406UniSTSRnor5.0
RGSC_v3.4985,121,084 - 85,121,277UniSTSRGSC3.4
Celera984,423,574 - 84,423,767UniSTS
Cytogenetic Map9q35UniSTS
PMC133987P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2987,007,322 - 87,007,765 (+)MAPPERmRatBN7.2
Rnor_6.0993,376,854 - 93,377,296NCBIRnor6.0
Rnor_5.0993,105,616 - 93,106,058UniSTSRnor5.0
RGSC_v3.4985,120,487 - 85,120,929UniSTSRGSC3.4
Celera984,422,977 - 84,423,419UniSTS
Cytogenetic Map9q35UniSTS
RH94572  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2987,004,468 - 87,004,628 (+)MAPPERmRatBN7.2
Rnor_6.0993,374,000 - 93,374,159NCBIRnor6.0
Rnor_5.0993,102,762 - 93,102,921UniSTSRnor5.0
RGSC_v3.4985,117,633 - 85,117,792UniSTSRGSC3.4
Celera984,420,123 - 84,420,282UniSTS
Cytogenetic Map9q35UniSTS
Ncl  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2153,699,188 - 3,699,761 (+)MAPPERmRatBN7.2
Rnor_6.0154,131,898 - 4,132,470NCBIRnor6.0
Rnor_5.0158,233,441 - 8,234,013UniSTSRnor5.0
RGSC_v3.4153,924,612 - 3,925,184UniSTSRGSC3.4
Celera15894,468 - 895,040UniSTS
Cytogenetic Map15p16UniSTS
Cytogenetic Map9q35UniSTS


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 6 6 6 4 2
Medium 3 43 51 35 19 35 8 11 70 35 39 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000024712   ⟹   ENSRNOP00000024712
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl986,999,297 - 87,008,136 (-)Ensembl
Rnor_6.0 Ensembl993,368,932 - 93,377,643 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100834   ⟹   ENSRNOP00000085305
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl986,998,019 - 87,006,205 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108022   ⟹   ENSRNOP00000085040
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl986,999,297 - 87,006,313 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118117   ⟹   ENSRNOP00000076825
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl986,998,019 - 87,008,136 (-)Ensembl
RefSeq Acc Id: NM_012749   ⟹   NP_036881
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8994,447,559 - 94,456,083 (-)NCBI
mRatBN7.2986,999,588 - 87,008,112 (-)NCBI
Rnor_6.0993,369,119 - 93,377,643 (-)NCBI
Rnor_5.0993,097,881 - 93,106,405 (-)NCBI
RGSC_v3.4985,112,752 - 85,121,276 (-)RGD
Celera984,415,242 - 84,423,766 (-)RGD
Sequence:
RefSeq Acc Id: NP_036881   ⟸   NM_012749
- UniProtKB: P13383 (UniProtKB/Swiss-Prot),   Q5U328 (UniProtKB/TrEMBL),   A6JWG9 (UniProtKB/TrEMBL),   F7EJZ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024712   ⟸   ENSRNOT00000024712
RefSeq Acc Id: ENSRNOP00000085040   ⟸   ENSRNOT00000108022
RefSeq Acc Id: ENSRNOP00000085305   ⟸   ENSRNOT00000100834
RefSeq Acc Id: ENSRNOP00000076825   ⟸   ENSRNOT00000118117
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P13383-F1-model_v2 AlphaFold P13383 1-713 view protein structure

Transcriptome

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

Promoters
RGD ID:13696822
Promoter ID:EPDNEW_R7347
Type:multiple initiation site
Name:Ncl_1
Description:nucleolin
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_6.0993,377,658 - 93,377,718EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3153 AgrOrtholog
BioCyc Gene G2FUF-26891 BioCyc
Ensembl Genes ENSRNOG00000018273 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00060008642 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000024712 ENTREZGENE
  ENSRNOT00000024712.6 UniProtKB/TrEMBL
  ENSRNOT00000100834.1 UniProtKB/TrEMBL
  ENSRNOT00000108022.1 UniProtKB/TrEMBL
  ENSRNOT00000118117.1 UniProtKB/TrEMBL
  ENSRNOT00060014719 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109097 IMAGE-MGC_LOAD
InterPro Nucleolin_RRM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleolin_RRM2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleolin_RRM3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleolin_RRM4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25135 UniProtKB/TrEMBL
MGC_CLONE MGC:93572 IMAGE-MGC_LOAD
NCBI Gene 25135 ENTREZGENE
PANTHER EUKARYOTIC TRANSLATION INITIATION FACTOR 4B/4H UniProtKB/TrEMBL
  HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN M-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NUCLEOLIN UniProtKB/TrEMBL
  NUCLEOLIN UniProtKB/TrEMBL
  OS02G0815200 PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSFORMER-2 SEX-DETERMINING PROTEIN-RELATED UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ncl PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018273 RatGTEx
  ENSRNOG00060008642 RatGTEx
SMART RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5Y747_RAT UniProtKB/TrEMBL
  A0A8I6A206_RAT UniProtKB/TrEMBL
  A0A8I6A236_RAT UniProtKB/TrEMBL
  A6JWG8_RAT UniProtKB/TrEMBL
  A6JWG9 ENTREZGENE, UniProtKB/TrEMBL
  A6JWH0_RAT UniProtKB/TrEMBL
  A6JWH1_RAT UniProtKB/TrEMBL
  A6JWH2_RAT UniProtKB/TrEMBL
  A6JWH4_RAT UniProtKB/TrEMBL
  A6JWH5_RAT UniProtKB/TrEMBL
  A6JWH6_RAT UniProtKB/TrEMBL
  A6JWH7_RAT UniProtKB/TrEMBL
  F7EJZ2 ENTREZGENE, UniProtKB/TrEMBL
  NUCL_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q5U328 ENTREZGENE
UniProt Secondary Q5U328 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Ncl  Nucleolin      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process binds calcium 727360