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 DNA binding activity; ErbB-4 class receptor binding activity; and RNA 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
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: LOC134485102   Ncl-ps1  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,447,559 - 94,456,083 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl994,446,682 - 94,456,083 (-)EnsemblGRCr8
mRatBN7.2986,999,588 - 87,008,112 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,998,019 - 87,008,136 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx995,417,234 - 95,425,754 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,546,259 - 100,554,894 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,927,937 - 98,936,461 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,369,119 - 93,377,643 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,368,932 - 93,377,643 (-)Ensemblrn6Rnor6.0
Rnor_5.0993,097,881 - 93,106,405 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4985,112,752 - 85,121,276 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera984,415,242 - 84,423,766 (-)NCBICelera
RGSC_v3.1985,296,294 - 85,304,569 (-)NCBI
Cytogenetic Map9q35NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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-dimethoxyphenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-bromohexadecanoic acid  (ISO)
3',5'-cyclic UMP  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
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)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
Brodifacoum  (EXP)
butanal  (ISO)
cadmium acetate  (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)
DDE  (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)
furfural  (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)
nitrates  (ISO)
Nivalenol  (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)
rotenone  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sodium dichromate  (EXP)
Soman  (EXP)
succimer  (ISO)
sulfasalazine  (EXP)
tanespimycin  (ISO)
temozolomide  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP,ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl994,446,682 - 94,456,083 (-)EnsemblGRCr8
mRatBN7.2986,999,588 - 87,008,112 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,998,019 - 87,008,136 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx995,417,234 - 95,425,754 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,546,259 - 100,554,894 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,927,937 - 98,936,461 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,369,119 - 93,377,643 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,368,932 - 93,377,643 (-)Ensemblrn6Rnor6.0
Rnor_5.0993,097,881 - 93,106,405 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4985,112,752 - 85,121,276 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera984,415,242 - 84,423,766 (-)NCBICelera
RGSC_v3.1985,296,294 - 85,304,569 (-)NCBI
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 (-)Ensemblhg38GRCh38
GRCh372232,318,242 - 232,329,195 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362232,027,703 - 232,037,449 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38186,344,719 - 86,359,455 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl186,344,719 - 86,359,400 (-)Ensemblmm10GRCm38
MGSCv37188,241,294 - 88,256,030 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2543,889,863 - 43,899,381 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02543,588,384 - 43,598,029 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_Cfam_GSD_1.0
NCL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15132,162,516 - 132,174,172 (-)EnsemblsusScr11Sscrofa11.1
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 1.0HetGla 1.0hetGla2
Ncl
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v14158,486,212 - 158,494,452 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ncl
150 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)956047863101047863Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94445825699506504Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)965657365108376720Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)986720043110356905Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)986720043121768150Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)964220169109220169Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)964220169109220169Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)964220169109220169Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)968875497121768150Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)983161999118999486Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)985262459109044727Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)985262459118999486Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)95450650499506504Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)964220169109220169Rat

Markers in Region
D9Arb5  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8994,456,606 - 94,456,869 (+)Marker Load Pipeline
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
Celera984,424,290 - 84,424,552UniSTS
RGSC_v3.1985,305,218 - 85,305,481RGD
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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000024712   ⟹   ENSRNOP00000024712
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl994,446,682 - 94,456,083 (-)Ensembl
mRatBN7.2 Ensembl986,999,297 - 87,008,136 (-)Ensembl
Rnor_6.0 Ensembl993,368,932 - 93,377,643 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000100834   ⟹   ENSRNOP00000085305
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl994,447,559 - 94,454,284 (-)Ensembl
mRatBN7.2 Ensembl986,998,019 - 87,006,205 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000108022   ⟹   ENSRNOP00000085040
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl994,447,559 - 94,454,284 (-)Ensembl
mRatBN7.2 Ensembl986,999,297 - 87,006,313 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000118117   ⟹   ENSRNOP00000076825
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl994,447,559 - 94,456,083 (-)Ensembl
mRatBN7.2 Ensembl986,998,019 - 87,008,136 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000159643   ⟹   ENSRNOP00000108212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl994,447,559 - 94,455,634 (-)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:
Ensembl Acc Id: ENSRNOP00000024712   ⟸   ENSRNOT00000024712
Ensembl Acc Id: ENSRNOP00000085040   ⟸   ENSRNOT00000108022
Ensembl Acc Id: ENSRNOP00000085305   ⟸   ENSRNOT00000100834
Ensembl Acc Id: ENSRNOP00000076825   ⟸   ENSRNOT00000118117
Ensembl Acc Id: ENSRNOP00000108212   ⟸   ENSRNOT00000159643
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
Ensembl Transcript ENSRNOT00000118117 ENTREZGENE
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7109097 IMAGE-MGC_LOAD
InterPro Nucleolin_RRM1 UniProtKB/Swiss-Prot
  Nucleolin_RRM2 UniProtKB/Swiss-Prot
  Nucleolin_RRM3 UniProtKB/Swiss-Prot
  Nucleolin_RRM4 UniProtKB/Swiss-Prot
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot
  RBD_domain_sf UniProtKB/Swiss-Prot
  RRM_dom UniProtKB/Swiss-Prot
  RRT5_SRSF_SR UniProtKB/Swiss-Prot
MGC_CLONE MGC:93572 IMAGE-MGC_LOAD
NCBI Gene 25135 ENTREZGENE
PANTHER NUCLEOLIN UniProtKB/Swiss-Prot
  RNA RECOGNITION MOTIF RRM DOMAIN CONTAINING PROTEIN UniProtKB/Swiss-Prot
Pfam RRM_1 UniProtKB/Swiss-Prot
PhenoGen Ncl PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000018273 RatGTEx
SMART RRM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot
UniProt A0A8I5Y747_RAT UniProtKB/TrEMBL
  A0A8I6A206_RAT UniProtKB/TrEMBL
  A0ABK0LC00_RAT UniProtKB/TrEMBL
  A0ABZ3NNA3_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


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