Cntf (ciliary neurotrophic factor) - Rat Genome Database

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Gene: Cntf (ciliary neurotrophic factor) Mus musculus
Analyze
Symbol: Cntf
Name: ciliary neurotrophic factor
RGD ID: 737002
MGI Page MGI
Description: Predicted to have signaling receptor binding activity. Involved in several processes, including negative regulation of photoreceptor cell differentiation; positive regulation of tyrosine phosphorylation of STAT protein; and regulation of retinal cell programmed cell death. Localizes to extracellular space. Is expressed in several structures, including alimentary system; integumental system; nervous system; respiratory system; and sensory organ. 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).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: AI429687; MGC41235
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391912,740,892 - 12,742,996 (-)NCBIGRCm39mm39
GRCm39 Ensembl1912,741,024 - 12,742,996 (-)Ensembl
GRCm381912,763,528 - 12,765,632 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1912,763,660 - 12,765,632 (-)EnsemblGRCm38mm10GRCm38
MGSCv371912,838,018 - 12,840,122 (-)NCBIGRCm37mm9NCBIm37
MGSCv361912,830,679 - 12,845,972 (-)NCBImm8
Celera1913,428,744 - 13,430,848 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.73NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:7585948   PMID:7601910   PMID:7749225   PMID:7780034   PMID:7818257   PMID:7835706   PMID:7841657   PMID:8050491   PMID:8053649   PMID:8187629   PMID:8361533   PMID:8449041  
PMID:8793295   PMID:9040657   PMID:9054517   PMID:9073449   PMID:9169087   PMID:9177239   PMID:9278535   PMID:9305364   PMID:9545499   PMID:9606417   PMID:10349636   PMID:11042159  
PMID:11076861   PMID:11085886   PMID:11160399   PMID:11217851   PMID:11567054   PMID:11747369   PMID:11870876   PMID:12042814   PMID:12106247   PMID:12150717   PMID:12153474   PMID:12477932  
PMID:12730667   PMID:12730954   PMID:12787792   PMID:12828933   PMID:12843240   PMID:12849744   PMID:12917363   PMID:14550774   PMID:14552871   PMID:14681479   PMID:15051883   PMID:15207851  
PMID:15342787   PMID:15353177   PMID:15489334   PMID:15525763   PMID:15634701   PMID:15716414   PMID:15748169   PMID:16039789   PMID:16141072   PMID:16141073   PMID:16274672   PMID:16467531  
PMID:16503985   PMID:16675525   PMID:16682639   PMID:16684879   PMID:16765103   PMID:16953113   PMID:16999202   PMID:17054938   PMID:17074046   PMID:17445802   PMID:17600124   PMID:17614103  
PMID:17953485   PMID:18086669   PMID:18293418   PMID:18305256   PMID:18524890   PMID:18678917   PMID:19023034   PMID:19098279   PMID:19332123   PMID:19703933   PMID:19906980   PMID:20008116  
PMID:20022887   PMID:20091786   PMID:20157807   PMID:21677750   PMID:21873635   PMID:22266927   PMID:22372951   PMID:22627288   PMID:22764235   PMID:22960105   PMID:22971093   PMID:22986012  
PMID:23038263   PMID:23077604   PMID:23407977   PMID:23443463   PMID:23525041   PMID:23626705   PMID:23653362   PMID:23693126   PMID:23896528   PMID:24129709   PMID:24167317   PMID:24194600  
PMID:24409114   PMID:24721701   PMID:25092804   PMID:25131634   PMID:25171250   PMID:25546438   PMID:25639936   PMID:26487326   PMID:26598325   PMID:26718832   PMID:27174608   PMID:28270618  
PMID:28589680   PMID:28706241   PMID:29029363   PMID:30115683   PMID:30299260   PMID:30500112   PMID:30504707  


Genomics

Comparative Map Data
Cntf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391912,740,892 - 12,742,996 (-)NCBIGRCm39mm39
GRCm39 Ensembl1912,741,024 - 12,742,996 (-)Ensembl
GRCm381912,763,528 - 12,765,632 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1912,763,660 - 12,765,632 (-)EnsemblGRCm38mm10GRCm38
MGSCv371912,838,018 - 12,840,122 (-)NCBIGRCm37mm9NCBIm37
MGSCv361912,830,679 - 12,845,972 (-)NCBImm8
Celera1913,428,744 - 13,430,848 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map198.73NCBI
CNTF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1158,622,665 - 58,625,733 (+)EnsemblGRCh38hg38GRCh38
GRCh381158,622,665 - 58,625,733 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371158,390,138 - 58,393,206 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361158,146,721 - 58,149,778 (+)NCBINCBI36hg18NCBI36
Build 341158,146,720 - 58,149,778NCBI
Celera1155,749,246 - 55,752,306 (+)NCBI
Cytogenetic Map11q12.1NCBI
HuRef1154,738,219 - 54,741,279 (+)NCBIHuRef
CHM1_11158,255,656 - 58,258,716 (+)NCBICHM1_1
Cntf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21209,887,854 - 209,889,877 (-)NCBI
Rnor_6.0 Ensembl1229,599,009 - 229,601,032 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01229,599,009 - 229,601,032 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01236,752,366 - 236,754,389 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41215,842,668 - 215,844,691 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11216,001,097 - 216,003,121 (-)NCBI
Celera1207,298,120 - 207,300,143 (-)NCBICelera
RH 3.4 Map11492.6RGD
Cytogenetic Map1q43NCBI
Cntf
(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
PanPan1.11157,336,792 - 57,341,127 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1157,336,792 - 57,341,121 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01153,876,081 - 53,882,870 (+)NCBIMhudiblu_PPA_v0panPan3
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 (-)NCBI
ROS_Cfam_1.01838,411,043 - 38,418,605 (-)NCBI
UMICH_Zoey_3.11838,010,392 - 38,017,942 (-)NCBI
UNSW_CanFamBas_1.01837,581,125 - 37,588,678 (-)NCBI
UU_Cfam_GSD_1.01838,203,356 - 38,210,926 (-)NCBI
Cntf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494713,596,340 - 13,602,966 (-)NCBI
SpeTri2.0NW_0049365813,710,171 - 3,715,753 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1212,492,777 - 12,495,401 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2212,129,497 - 12,133,389 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CNTF
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1114,724,562 - 14,730,698 (-)NCBI
ChlSab1.1 Ensembl114,728,383 - 14,730,150 (-)Ensembl
Cntf
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248641,785,215 - 1,788,608 (-)NCBI

Position Markers
AW545902  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381912,766,250 - 12,766,351UniSTSGRCm38
MGSCv371912,840,740 - 12,840,841UniSTSGRCm37
Celera1913,431,466 - 13,431,567UniSTS
Cytogenetic Map19AUniSTS
cM Map197.0UniSTS
cM Map197.0UniSTS
Whitehead/MRC_RH19139.74UniSTS
AI429687  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381912,763,780 - 12,763,887UniSTSGRCm38
MGSCv371912,838,270 - 12,838,377UniSTSGRCm37
Celera1913,428,996 - 13,429,103UniSTS
Cytogenetic Map19AUniSTS
cM Map197.0UniSTS
cM Map197.0UniSTS
Whitehead/MRC_RH19143.01UniSTS
Whitehead/MRC_RH19140.9UniSTS
Cntf  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381912,763,725 - 12,765,331UniSTSGRCm38
MGSCv371912,838,215 - 12,839,821UniSTSGRCm37
Celera1913,428,941 - 13,430,547UniSTS
Cytogenetic Map19AUniSTS
cM Map197.0UniSTS
Cntf  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381715,535,546 - 15,535,801UniSTSGRCm38
MGSCv371715,672,510 - 15,672,765UniSTSGRCm37
Celera1716,320,829 - 16,321,084UniSTS
Cytogenetic Map19AUniSTS
Cytogenetic Map17A2UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300776Lfp3_mlong free running period 3 (mouse)Not determined19120278703Mouse
4142161Drinksac2_mdrink saccharin 2 (mouse)Not determined120645286Mouse
4142302Nstr1_mnerve sheath tumor resistance QTL 1 (mouse)Not determined19122321310Mouse
1301271Datd_mdopamine transporter density (mouse)Not determined19132362870Mouse
4142406Pbctlp1_mperipheral blood cytotoxic T lymphocyte percentage 1 (mouse)Not determined132897810Mouse
1300904Chab5_mcholesterol absorption 5 (mouse)Not determined19167640035676563Mouse
26884385Skwq14_mskull length QTL 14, 16 week (mouse)19320000035900000Mouse
1357819Tgct2_mtesticular germ cell tumor 2 (mouse)Not determined19327855120562299Mouse
1300923Bits4_mbitterness sensitivity 4 (mouse)Not determined19334585237345984Mouse
1301800Faq10_mfluctuating asymmetry QTL 10 (mouse)Not determined19334585237345984Mouse
1300591Pas3_mpulmonary adenoma susceptibility 3 (mouse)Not determined19334585237345984Mouse
1302126Skull26_mskull morphology 26 (mouse)Not determined19334585237345984Mouse
11039522Tbbr4_mTrypanosoma brucei brucei response 4 (mouse)19533596239336106Mouse
1301228Iba4_minduction of brown adipocytes 4 (mouse)Not determined19932831543328421Mouse
1302019Pgia23_mproteoglycan induced arthritis 23 (mouse)Not determined19981005343810202Mouse
38455997Cdtm2_mCD62L+ CD8 TM cells 2 (mouse)191000000020000000Mouse
14928311Manh85_mmandible shape 85 (mouse)191193738945937389Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:109
Interacting mature miRNAs:112
Transcripts:ENSMUST00000112933
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000112933   ⟹   ENSMUSP00000108555
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1912,763,660 - 12,765,632 (-)Ensembl
RefSeq Acc Id: NM_170786   ⟹   NP_740756
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391912,740,892 - 12,742,996 (-)NCBI
GRCm381912,763,528 - 12,765,632 (-)ENTREZGENE
MGSCv371912,838,018 - 12,840,122 (-)RGD
Celera1913,428,744 - 13,430,848 (-)RGD
cM Map19 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_740756 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH27539 (Get FASTA)   NCBI Sequence Viewer  
  BAC30862 (Get FASTA)   NCBI Sequence Viewer  
  EDL41483 (Get FASTA)   NCBI Sequence Viewer  
  P51642 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_740756   ⟸   NM_170786
- UniProtKB: P51642 (UniProtKB/Swiss-Prot),   Q544D1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000108555   ⟸   ENSMUST00000112933

Promoters
RGD ID:6829916
Promoter ID:MM_KWN:26501
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   MEF_B6
Transcripts:NM_170786
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361912,839,679 - 12,840,179 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:88439 AgrOrtholog
Ensembl Genes ENSMUSG00000067492
  ENSMUSG00000079415 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000108555 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000112933 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro 4_helix_cytokine-like_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ciliary_neurotrophic_fac_CNTF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12803 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:88439 ENTREZGENE
NCBI Gene 12803 ENTREZGENE
PANTHER PTHR15196 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CNTF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cntf PhenoGen
Superfamily-SCOP SSF47266 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CNTF_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q544D1 ENTREZGENE, UniProtKB/TrEMBL