Nenf (neudesin neurotrophic factor) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Nenf (neudesin neurotrophic factor) Rattus norvegicus
Analyze
Symbol: Nenf
Name: neudesin neurotrophic factor
RGD ID: 1303289
Description: Predicted to enable growth factor activity. Predicted to be involved in negative regulation of appetite and negative regulation of neuron death. Predicted to act upstream of or within positive regulation of MAPK cascade and signal transduction. Located in endoplasmic reticulum and mitochondrion. Orthologous to human NENF (neudesin neurotrophic factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: neudesin; neuron derived neurotrophic factor; neuron-derived neurotrophic factor; SCIRP10; SCIRP10-related protein; secreted protein of unknown function; Spinal cord injury related protein 10; spinal cord injury-related protein 10; Spuf
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213102,888,004 - 102,894,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13102,888,004 - 102,894,804 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13105,408,038 - 105,414,836 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.013106,791,887 - 106,798,681 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.013104,006,981 - 104,013,771 (-)NCBIRnor_WKY
Rnor_6.013109,990,294 - 109,997,092 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13109,990,294 - 109,997,092 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013114,555,781 - 114,562,973 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413107,368,359 - 107,377,301 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.113107,557,462 - 107,566,405 (-)NCBI
Celera13102,327,266 - 102,333,852 (-)NCBICelera
Cytogenetic Map13q27NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Rewiring of the Human Mitochondrial Interactome during Neuronal Reprogramming Reveals Regulators of the Respirasome and Neurogenesis. Moutaoufik MT, etal., iScience. 2019 Sep 27;19:1114-1132. doi: 10.1016/j.isci.2019.08.057. Epub 2019 Sep 4.
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15605373   PMID:23576617  


Genomics

Comparative Map Data
Nenf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213102,888,004 - 102,894,804 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl13102,888,004 - 102,894,804 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13105,408,038 - 105,414,836 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.013106,791,887 - 106,798,681 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.013104,006,981 - 104,013,771 (-)NCBIRnor_WKY
Rnor_6.013109,990,294 - 109,997,092 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13109,990,294 - 109,997,092 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013114,555,781 - 114,562,973 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413107,368,359 - 107,377,301 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.113107,557,462 - 107,566,405 (-)NCBI
Celera13102,327,266 - 102,333,852 (-)NCBICelera
Cytogenetic Map13q27NCBI
NENF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381212,432,920 - 212,446,379 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1212,432,920 - 212,446,379 (+)EnsemblGRCh38hg38GRCh38
GRCh371212,606,262 - 212,619,721 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361210,672,903 - 210,686,344 (+)NCBINCBI36Build 36hg18NCBI36
Celera1185,831,945 - 185,845,437 (+)NCBICelera
Cytogenetic Map1q32.3NCBI
HuRef1183,282,375 - 183,295,705 (+)NCBIHuRef
CHM1_11213,879,110 - 213,892,598 (+)NCBICHM1_1
T2T-CHM13v2.01211,677,617 - 211,691,093 (+)NCBIT2T-CHM13v2.0
Nenf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391191,038,984 - 191,050,328 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1191,038,986 - 191,050,391 (-)EnsemblGRCm39 Ensembl
GRCm381191,306,787 - 191,318,131 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1191,306,789 - 191,318,194 (-)EnsemblGRCm38mm10GRCm38
MGSCv371193,130,676 - 193,141,997 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361193,007,412 - 193,018,733 (-)NCBIMGSCv36mm8
MGSCv361192,685,828 - 192,698,054 (-)NCBIMGSCv36mm8
Celera1198,236,999 - 198,260,387 (-)NCBICelera
Cytogenetic Map1H6NCBI
Nenf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554065,025,732 - 5,030,938 (-)NCBIChiLan1.0ChiLan1.0
NENF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11192,868,804 - 192,874,364 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01187,998,006 - 188,011,260 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
NENF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1710,614,803 - 10,624,555 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl710,623,041 - 10,781,965 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha710,189,129 - 10,199,779 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0710,319,559 - 10,330,211 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl710,319,553 - 10,330,203 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1710,242,329 - 10,252,975 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0710,343,652 - 10,354,283 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0710,467,367 - 10,478,025 (+)NCBIUU_Cfam_GSD_1.0
Nenf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934463,850,884 - 63,854,514 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365571,091,166 - 1,094,796 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NENF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9130,948,196 - 130,959,157 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19130,948,183 - 130,959,163 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29143,995,981 - 144,006,933 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NENF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12517,080,134 - 17,091,391 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2517,080,005 - 17,091,346 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605517,577,495 - 17,588,859 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nenf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477117,907,162 - 17,915,991 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477117,907,983 - 17,915,468 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nenf
31 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:98
Count of miRNA genes:83
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000005190
Prediction methods:Microtar, Rnahybrid, Targetscan
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
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

Markers in Region
RH130483  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213102,888,059 - 102,888,268 (+)MAPPERmRatBN7.2
Rnor_6.013109,990,350 - 109,990,558NCBIRnor6.0
Rnor_5.013114,555,837 - 114,556,045UniSTSRnor5.0
RGSC_v3.413107,368,415 - 107,368,623UniSTSRGSC3.4
Celera13102,327,322 - 102,327,530UniSTS
RH 3.4 Map13727.2UniSTS
Cytogenetic Map13q27UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 48 32 19 32 8 11 74 35 41 11 8
Low 9 9 9
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000005190   ⟹   ENSRNOP00000005190
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13102,888,004 - 102,894,804 (-)Ensembl
Rnor_6.0 Ensembl13109,990,294 - 109,997,092 (-)Ensembl
RefSeq Acc Id: NM_001002851   ⟹   NP_001002851
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213102,888,004 - 102,894,804 (-)NCBI
Rnor_6.013109,990,294 - 109,997,092 (-)NCBI
Rnor_5.013114,555,781 - 114,562,973 (-)NCBI
RGSC_v3.413107,368,359 - 107,377,301 (-)RGD
Celera13102,327,266 - 102,333,852 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001002851 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAT39544 (Get FASTA)   NCBI Sequence Viewer  
  EDL95000 (Get FASTA)   NCBI Sequence Viewer  
  EDL95001 (Get FASTA)   NCBI Sequence Viewer  
  Q6IUR5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001002851   ⟸   NM_001002851
- Peptide Label: precursor
- UniProtKB: Q6IUR5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000005190   ⟸   ENSRNOT00000005190
Protein Domains
Cytochrome b5 heme-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6IUR5-F1-model_v2 AlphaFold Q6IUR5 1-171 view protein structure

Transcriptome

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

Promoters
RGD ID:13699114
Promoter ID:EPDNEW_R9639
Type:multiple initiation site
Name:Nenf_1
Description:neudesin 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_6.013109,997,099 - 109,997,159EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303289 AgrOrtholog
BioCyc Gene G2FUF-16847 BioCyc
Ensembl Genes ENSRNOG00000003833 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000005190 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000005190 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.10.120.10 UniProtKB/Swiss-Prot
InterPro Cyt_B5-like_heme/steroid-bd UniProtKB/Swiss-Prot
  Cyt_B5-like_heme/steroid_sf UniProtKB/Swiss-Prot
KEGG Report rno:289380 UniProtKB/Swiss-Prot
NCBI Gene 289380 ENTREZGENE
Pfam Cyt-b5 UniProtKB/Swiss-Prot
PhenoGen Nenf PhenoGen
SMART Cyt-b5 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF55856 UniProtKB/Swiss-Prot
UniProt NENF_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-02 Nenf  neudesin neurotrophic factor  Nenf  neuron derived neurotrophic factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Nenf  neuron derived neurotrophic factor  SCIRP10  SCIRP10-related protein  Symbol and Name updated 1299863 APPROVED
2005-09-30 SCIRP10        Symbol and Name status set to provisional 70820 PROVISIONAL