Cntf (ciliary neurotrophic factor) - Rat Genome Database

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Gene: Cntf (ciliary neurotrophic factor) Rattus norvegicus
Analyze
Symbol: Cntf
Name: ciliary neurotrophic factor
RGD ID: 2370
Description: Enables ciliary neurotrophic factor receptor binding activity and cytokine activity. Involved in several processes, including membrane hyperpolarization; neurogenesis; and positive regulation of cell communication. Located in several cellular components, including glial cell projection; neuronal cell body; and plasma membrane bounded cell projection cytoplasm. Used to study Huntington's disease and glaucoma. Biomarker of hyperglycemia and retinitis pigmentosa. Human ortholog(s) of this gene implicated in Huntington's disease; disease of mental health; glaucoma; multiple sclerosis; and obesity. Orthologous to human CNTF (ciliary neurotrophic factor); PARTICIPATES IN cytokine mediated signaling pathway; Jak-Stat signaling pathway; INTERACTS WITH (+)-pilocarpine; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ciliary neurotropic factor
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
GRCr81219,312,512 - 219,314,535 (-)NCBIGRCr8
mRatBN7.21209,887,854 - 209,889,877 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1209,887,854 - 209,889,877 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1218,262,432 - 218,264,455 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01225,180,209 - 225,182,240 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01218,016,909 - 218,018,932 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01229,599,009 - 229,601,032 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1229,599,009 - 229,601,032 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01236,752,366 - 236,754,389 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41215,842,668 - 215,844,691 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11216,001,097 - 216,003,121 (-)NCBI
Celera1207,298,120 - 207,300,143 (-)NCBICelera
RH 3.4 Map11492.6RGD
Cytogenetic Map1q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Overcoming insulin resistance with CNTF. Ahima RS Nat Med. 2006 May;12(5):511-2.
2. Ciliary neurotrophic factor activates spinal cord astrocytes, stimulating their production and release of fibroblast growth factor-2, to increase motor neuron survival. Albrecht PJ, etal., Exp Neurol. 2002 Jan;173(1):46-62.
3. Ciliary neurotrophic factor in the olfactory bulb of rats and mice. Asan E, etal., Neuroscience 2003;120(1):99-112.
4. Reduced ciliary neuronotrophic factor-like activity in nerves from diabetic or galactose-fed rats. Calcutt NA, etal., Brain Res. 1992 Mar 20;575(2):320-4.
5. Differential regulation of ciliary neurotrophic factor and its receptor in the rat hippocampus in response to kainic acid-induced excitotoxicity. Choi JS, etal., Mol Cells 2004 Apr 30;17(2):292-6.
6. Expression of neurotrophic factors and their receptors in keratoconic cornea. Chung ES, etal., Curr Eye Res. 2013 Jul;38(7):743-50. doi: 10.3109/02713683.2013.774421. Epub 2013 Mar 14.
7. The receptor for ciliary neurotrophic factor. Davis S, etal., Science. 1991 Jul 5;253(5015):59-63.
8. Protective effect of encapsulated cells producing neurotrophic factor CNTF in a monkey model of Huntington's disease. Emerich DF, etal., Nature 1997 Mar 27;386(6623):395-9.
9. 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.
10. Brain-derived neurotrophic factor as a biomarker in primary open-angle glaucoma. Ghaffariyeh A, etal., Optom Vis Sci. 2011 Jan;88(1):80-5. doi: 10.1097/OPX.0b013e3181fc329f.
11. Early onset of severe familial amyotrophic lateral sclerosis with a SOD-1 mutation: potential impact of CNTF as a candidate modifier gene. Giess R, etal., Am J Hum Genet 2002 May;70(5):1277-86. Epub 2002 Apr 9.
12. Association of a null mutation in the CNTF gene with early onset of multiple sclerosis. Giess R, etal., Arch Neurol. 2002 Mar;59(3):407-9.
13. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
14. CNTF is specifically expressed in developing rat pineal gland and eyes. Hata K, etal., Neuroreport 2002 Apr 16;13(5):735-9.
15. Lens Injury Has a Protective Effect on Photoreceptors in the RCS Rat. Heiduschka P, etal., ISRN Ophthalmol. 2013 Sep 19;2013:814814. doi: 10.1155/2013/814814. eCollection 2013.
16. Ciliary neurotrophic factor (CNTF) genotype and body composition. Jacob AC, etal., Eur J Hum Genet. 2004 May;12(5):372-6.
17. CNTF promotes survival of retinal ganglion cells after induction of ocular hypertension in rats: the possible involvement of STAT3 pathway. Ji JZ, etal., Eur J Neurosci. 2004 Jan;19(2):265-72.
18. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
19. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
20. Corticostriatopallidal neuroprotection by adenovirus-mediated ciliary neurotrophic factor gene transfer in a rat model of progressive striatal degeneration. Mittoux V, etal., J Neurosci 2002 Jun 1;22(11):4478-86.
21. Comparison of the effects of HGF, BDNF, CT-1, CNTF, and the branchial arches on the growth of embryonic cranial motor neurons. Naeem A, etal., J Neurobiol 2002 May;51(2):101-14.
22. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Neuroprotective effect of transcorneal electrical stimulation on light-induced photoreceptor degeneration. Ni YQ, etal., Exp Neurol. 2009 Oct;219(2):439-52. doi: 10.1016/j.expneurol.2009.06.016. Epub 2009 Jul 2.
24. Null mutation in human ciliary neurotrophic factor gene confers higher body mass index in males. O'Dell SD, etal., Eur J Hum Genet. 2002 Nov;10(11):749-52.
25. The complex of ciliary neurotrophic factor-ciliary neurotrophic factor receptor alpha up-regulates connexin43 and intercellular coupling in astrocytes via the Janus tyrosine kinase/signal transducer and activator of transcription pathway. Ozog MA, etal., Mol Biol Cell 2004 Nov;15(11):4761-74. Epub 2004 Sep 1.
26. Cellular mechanisms associated with spontaneous and ciliary neurotrophic factor-cAMP-induced survival and axonal regeneration of adult retinal ganglion cells. Park K, etal., J Neurosci. 2004 Dec 1;24(48):10806-15.
27. Effect of CNTF on retinal ganglion cell survival in experimental glaucoma. Pease ME, etal., Invest Ophthalmol Vis Sci. 2009 May;50(5):2194-200. doi: 10.1167/iovs.08-3013. Epub 2008 Dec 5.
28. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
29. GOA pipeline RGD automated data pipeline
30. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
31. Cross-linking identifies leukemia inhibitory factor-binding protein as a ciliary neurotrophic factor receptor component. Stahl N, etal., J Biol Chem. 1993 Apr 15;268(11):7628-31.
32. Molecular cloning, expression and regional distribution of rat ciliary neurotrophic factor. Stockli KA, etal., Nature 1989 Dec 21-28;342(6252):920-3.
33. Rapid protein kinase C-dependent reduction of rat skeletal muscle voltage-gated sodium channels by ciliary neurotrophic factor. Talon S, etal., J Physiol. 2005 Jun 15;565(Pt 3):827-41. Epub 2005 Apr 14.
34. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
35. Association between a null mutation in the human ciliary neurotrophic factor (CNTF) gene and increased incidence of psychiatric diseases? Thome J, etal., Neurosci Lett 1996 Jan 19;203(2):109-10.
36. Protection of the rat retina from ischemic injury by brain-derived neurotrophic factor, ciliary neurotrophic factor, and basic fibroblast growth factor. Unoki K and LaVail MM, Invest Ophthalmol Vis Sci. 1994 Mar;35(3):907-15.
37. Oncomodulin is a macrophage-derived signal for axon regeneration in retinal ganglion cells. Yin Y, etal., Nat Neurosci. 2006 Jun;9(6):843-52. Epub 2006 May 14.
38. The regulation and activation of ciliary neurotrophic factor signaling proteins in adipocytes. Zvonic S, etal., J Biol Chem 2003 Jan 24;278(4):2228-35.
Additional References at PubMed
PMID:10966616   PMID:11747369   PMID:12150983   PMID:12397370   PMID:12643274   PMID:12950323   PMID:15051883   PMID:15193523   PMID:15207851   PMID:15304243   PMID:15716414   PMID:15755520  
PMID:16396984   PMID:16483693   PMID:16617151   PMID:16684879   PMID:16999202   PMID:17054938   PMID:18086669   PMID:18188971   PMID:18293415   PMID:18401707   PMID:18615534   PMID:18805412  
PMID:18950628   PMID:18992343   PMID:19267906   PMID:19272793   PMID:19289286   PMID:19332123   PMID:19626993   PMID:20209167   PMID:20800647   PMID:21640078   PMID:21696588   PMID:21912637  
PMID:22037350   PMID:22146310   PMID:22372951   PMID:22715380   PMID:23123407   PMID:23264628   PMID:23271288   PMID:23665214   PMID:23982826   PMID:24129709   PMID:25799580   PMID:27581683  
PMID:30504707   PMID:32313077   PMID:35925584   PMID:37408083   PMID:38334594  


Genomics

Comparative Map Data
Cntf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81219,312,512 - 219,314,535 (-)NCBIGRCr8
mRatBN7.21209,887,854 - 209,889,877 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1209,887,854 - 209,889,877 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1218,262,432 - 218,264,455 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01225,180,209 - 225,182,240 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01218,016,909 - 218,018,932 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01229,599,009 - 229,601,032 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1229,599,009 - 229,601,032 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01236,752,366 - 236,754,389 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41215,842,668 - 215,844,691 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11216,001,097 - 216,003,121 (-)NCBI
Celera1207,298,120 - 207,300,143 (-)NCBICelera
RH 3.4 Map11492.6RGD
Cytogenetic Map1q43NCBI
CNTF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381158,622,665 - 58,625,733 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1158,622,665 - 58,625,733 (+)EnsemblGRCh38hg38GRCh38
GRCh371158,390,138 - 58,393,206 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361158,146,721 - 58,149,778 (+)NCBINCBI36Build 36hg18NCBI36
Build 341158,146,720 - 58,149,778NCBI
Celera1155,749,246 - 55,752,306 (+)NCBICelera
Cytogenetic Map11q12.1NCBI
HuRef1154,738,219 - 54,741,279 (+)NCBIHuRef
CHM1_11158,255,656 - 58,258,716 (+)NCBICHM1_1
T2T-CHM13v2.01158,572,163 - 58,575,231 (+)NCBIT2T-CHM13v2.0
Cntf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391912,740,892 - 12,742,996 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1912,741,024 - 12,742,996 (-)EnsemblGRCm39 Ensembl
GRCm381912,763,528 - 12,765,632 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1912,763,660 - 12,765,632 (-)EnsemblGRCm38mm10GRCm38
MGSCv371912,838,018 - 12,840,122 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361912,830,679 - 12,845,972 (-)NCBIMGSCv36mm8
Celera1913,428,744 - 13,430,848 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.73NCBI
Cntf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555113,527,552 - 3,534,348 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555113,527,552 - 3,531,275 (+)NCBIChiLan1.0ChiLan1.0
CNTF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2959,786,962 - 59,794,946 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11160,812,898 - 60,822,209 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01153,876,081 - 53,882,870 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11157,336,792 - 57,341,127 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1157,336,792 - 57,341,121 (+)Ensemblpanpan1.1panPan2
CNTF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11837,758,148 - 37,765,698 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1837,294,972 - 37,302,526 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01838,411,043 - 38,418,605 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1838,411,474 - 38,461,913 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11838,010,392 - 38,017,942 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01837,581,125 - 37,588,678 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01838,203,356 - 38,210,926 (-)NCBIUU_Cfam_GSD_1.0
Cntf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494713,596,340 - 13,602,966 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365813,710,160 - 3,715,638 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365813,710,171 - 3,715,753 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl212,493,169 - 12,496,159 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1212,492,777 - 12,495,401 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2212,129,497 - 12,133,389 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CNTF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1114,724,562 - 14,730,698 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl114,728,383 - 14,730,150 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038112,054,464 - 112,061,427 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cntf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248641,782,139 - 1,792,879 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248641,785,215 - 1,788,608 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cntf
4 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:270
Count of miRNA genes:185
Interacting mature miRNAs:203
Transcripts:ENSRNOT00000016690
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
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1197697768242697768Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1167909849212909849Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1171629477216629477Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1171629477216629477Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1180359209210702199Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1172609619217609619Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1174133260219133260Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1178784622223784622Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1206081677251081677Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1184550676229550676Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1171629477216629477Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1201554356246554356Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169537671214537671Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1171629477216629477Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1185145134221264292Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1183970203243914901Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1173108781218108781Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1201554356246554356Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1171629477216629477Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1181133855226133855Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1171629477216629477Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1201554356246554356Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1197814409242814409Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1193113876238113876Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
1358292Cm37Cardiac mass QTL 376.28e-07heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1196248093241248093Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1197814409242814409Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1182623426219932796Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1171310381216310381Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1206329708251329708Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1181759564214537555Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1206329708251329708Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1176869060221869060Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1185356336231689108Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1178810256240830002Rat
2292218Kidm35Kidney mass QTL 35kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1199368955224569684Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1169537671214537671Rat
1331790Bp201Blood pressure QTL 2013.127arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1198211513225126682Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1202069611247069611Rat
61403Niddm4Non-insulin dependent diabetes mellitus QTL 4blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1206329708222745518Rat
1300168Bp170Blood pressure QTL 1702.76arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1207702246228581766Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393213533942Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1191033875236033875Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1197697768238755659Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1196248093241248093Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1176550523221550523Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1188377360224054420Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1183970203243914901Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1193422268214537671Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1180359209218108781Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1197670404242670404Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1203995416244113296Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1181829673224569684Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1192825253243914732Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1201554356246554356Rat

Markers in Region
RH127650  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21209,891,668 - 209,891,848 (+)MAPPERmRatBN7.2
Rnor_6.01229,602,824 - 229,603,003NCBIRnor6.0
Rnor_5.01236,756,181 - 236,756,360UniSTSRnor5.0
RGSC_v3.41215,846,483 - 215,846,662UniSTSRGSC3.4
Celera1207,301,935 - 207,302,114UniSTS
RH 3.4 Map11498.9UniSTS
Cytogenetic Map1q43UniSTS
RH128594  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21209,887,969 - 209,888,150 (+)MAPPERmRatBN7.2
Rnor_6.01229,599,125 - 229,599,305NCBIRnor6.0
Rnor_5.01236,752,482 - 236,752,662UniSTSRnor5.0
RGSC_v3.41215,842,784 - 215,842,964UniSTSRGSC3.4
Celera1207,298,236 - 207,298,416UniSTS
Cytogenetic Map1q43UniSTS
D1Bda54  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map1q43UniSTS
RH94581  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21209,887,928 - 209,888,115 (+)MAPPERmRatBN7.2
Rnor_6.01229,599,084 - 229,599,270NCBIRnor6.0
Rnor_5.01236,752,441 - 236,752,627UniSTSRnor5.0
RGSC_v3.41215,842,743 - 215,842,929UniSTSRGSC3.4
Celera1207,298,195 - 207,298,381UniSTS
RH 3.4 Map11492.6UniSTS
Cytogenetic Map1q43UniSTS
Cntf  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21209,888,096 - 209,889,737 (+)MAPPERmRatBN7.2
Rnor_6.01229,599,252 - 229,600,892NCBIRnor6.0
Rnor_5.01236,752,609 - 236,754,249UniSTSRnor5.0
RGSC_v3.41215,842,911 - 215,844,551UniSTSRGSC3.4
Celera1207,298,363 - 207,300,003UniSTS
Cytogenetic Map1q43UniSTS


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 2 8 2 11 2 2 2 42 21 22 4 2
Low 3 41 49 39 8 39 6 9 32 14 19 7 6
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000016690   ⟹   ENSRNOP00000016690
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1209,887,854 - 209,889,877 (-)Ensembl
Rnor_6.0 Ensembl1229,599,009 - 229,601,032 (-)Ensembl
RefSeq Acc Id: NM_013166   ⟹   NP_037298
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81219,312,512 - 219,314,535 (-)NCBI
mRatBN7.21209,887,854 - 209,889,877 (-)NCBI
Rnor_6.01229,599,009 - 229,601,032 (-)NCBI
Rnor_5.01236,752,366 - 236,754,389 (-)NCBI
RGSC_v3.41215,842,668 - 215,844,691 (-)RGD
Celera1207,298,120 - 207,300,143 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_037298 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA35500 (Get FASTA)   NCBI Sequence Viewer  
  EDM12928 (Get FASTA)   NCBI Sequence Viewer  
  EDM12929 (Get FASTA)   NCBI Sequence Viewer  
  EDM12930 (Get FASTA)   NCBI Sequence Viewer  
  EDM12931 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016690.1
  ENSRNOP00055014154
GenBank Protein P20294 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037298   ⟸   NM_013166
- UniProtKB: P20294 (UniProtKB/Swiss-Prot),   G3V7M6 (UniProtKB/TrEMBL),   A6I0E7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016690   ⟸   ENSRNOT00000016690
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P20294-F1-model_v2 AlphaFold P20294 1-200 view protein structure

Transcriptome

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

Promoters
RGD ID:13690800
Promoter ID:EPDNEW_R1325
Type:single initiation site
Name:Cntf_1
Description:ciliary neurotrophic factor
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_6.01229,601,035 - 229,601,095EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2370 AgrOrtholog
BioCyc Gene G2FUF-56293 BioCyc
Ensembl Genes ENSRNOG00000012460 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00055010397 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000016690.3 UniProtKB/TrEMBL
  ENSRNOT00055017589 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1250.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro 4_helix_cytokine-like_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ciliary_neurotrophic_fac_CNTF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
KEGG Report rno:25707 UniProtKB/Swiss-Prot
NCBI Gene 25707 ENTREZGENE
PANTHER CILIARY NEUROTROPHIC FACTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  E3 UBIQUITIN-PROTEIN LIGASE ZFP91 UniProtKB/TrEMBL
  PTHR15196 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZINC FINGER PROTEIN UniProtKB/TrEMBL
Pfam CNTF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PhenoGen Cntf PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012460 RatGTEx
  ENSRNOG00055010397 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP beta-beta-alpha zinc fingers UniProtKB/TrEMBL
  SSF47266 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC207796
UniProt A6I0E7 ENTREZGENE, UniProtKB/TrEMBL
  A6I0E8_RAT UniProtKB/TrEMBL
  A6I0E9_RAT UniProtKB/TrEMBL
  A6I0F0_RAT UniProtKB/TrEMBL
  CNTF_RAT UniProtKB/Swiss-Prot
  G3V7M6 ENTREZGENE, UniProtKB/TrEMBL
  P20294 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Cntf  ciliary neurotrophic factor    ciliary neurotropic factor  Name updated 1299863 APPROVED
2002-06-10 Cntf  Ciliary neurotropic factor      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease slows down the pathological process of Huntingtons disease 628474
gene_expression expressed in the striatal neurons of the brain 628474
gene_other adenovirus mediated Cntf gene transfer is useful for neuroprotection 628474
gene_process potent protective factor for striatal neurons 628474
gene_process activates STAT 3 in adipose tissue and skeletal muscle 727575