RTN4 (reticulon 4) - Rat Genome Database
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Gene: RTN4 (reticulon 4) Canis lupus familiaris
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Symbol: RTN4
Name: reticulon 4
RGD ID: 12223765
Description: ENCODES a protein that exhibits cadherin binding (ortholog); protein homodimerization activity (ortholog); protein-containing complex binding (ortholog); INVOLVED IN aging (ortholog); angiogenesis (ortholog); cell adhesion involved in sprouting angiogenesis (ortholog); ASSOCIATED WITH Experimental Liver Cirrhosis (ortholog); schizophrenia (ortholog); visual epilepsy (ortholog); FOUND IN axon (ortholog); cell junction (ortholog); cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOW QUALITY PROTEIN: reticulon-4; reticulon-4; RTN4-Cw
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1055,885,125 - 55,936,574 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11055,884,452 - 55,954,476 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
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
aging  (ISO)
angiogenesis  (ISO)
axonal fasciculation  (IEA)
blastocyst formation  (IEA)
cardiac epithelial to mesenchymal transition  (IEA)
cell adhesion involved in sprouting angiogenesis  (ISO)
cell migration involved in vasculogenesis  (ISO)
cellular response to hypoxia  (ISO)
cellular sphingolipid homeostasis  (IEA)
central nervous system vasculogenesis  (ISO)
cerebral cortex radial glia guided migration  (IEA)
endoplasmic reticulum organization  (ISO)
endoplasmic reticulum tubular network formation  (IEA)
endoplasmic reticulum tubular network membrane organization  (IEA)
endoplasmic reticulum tubular network organization  (ISO)
leukocyte migration involved in inflammatory response  (ISO)
negative regulation of amyloid-beta formation  (IEA)
negative regulation of axon extension  (IEA)
negative regulation of axonogenesis  (ISO)
negative regulation of cell growth  (ISO)
negative regulation of dendrite extension  (ISO)
negative regulation of formation of growth cone in injured axon  (ISO)
negative regulation of neuron differentiation  (ISO)
negative regulation of neuron projection development  (ISO)
negative regulation of neuron projection regeneration  (ISO)
negative regulation of vasculogenesis  (ISO)
nervous system development  (ISO)
nuclear pore complex assembly  (IEA)
olfactory nerve development  (ISO)
oligodendrocyte differentiation  (ISO)
positive regulation of angiogenesis  (ISO)
positive regulation of artery morphogenesis  (ISO)
positive regulation of collateral sprouting of injured axon  (ISO)
positive regulation of dopamine secretion  (ISO)
positive regulation of epithelial cell migration  (IEA)
positive regulation of ERBB3 signaling pathway  (IEA)
positive regulation of glial cell differentiation  (ISO)
positive regulation of hepatocyte proliferation  (ISO)
positive regulation of macrophage cytokine production  (ISO)
positive regulation of macrophage migration  (ISO)
positive regulation of mammary gland epithelial cell proliferation  (IEA)
positive regulation of neutrophil migration  (ISO)
positive regulation of protein kinase B signaling  (IEA)
positive regulation of protein localization to endoplasmic reticulum  (IEA)
positive regulation of Rac protein signal transduction  (ISO)
positive regulation of toll-like receptor 9 signaling pathway  (IEA)
protein localization to lysosome  (IEA)
protein stabilization  (IEA)
regulation of branching morphogenesis of a nerve  (IEA)
regulation of cell migration  (ISO)
regulation of nervous system development  (ISO)
regulation of sensory perception of pain  (ISO)
response to activity  (ISO)

Molecular Function

References
Additional References at PubMed
PMID:12832288  


Genomics

Comparative Map Data
RTN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1055,885,125 - 55,936,574 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11055,884,452 - 55,954,476 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
RTN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl254,972,187 - 55,112,621 (-)EnsemblGRCh38hg38GRCh38
GRCh38254,972,189 - 55,137,831 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37255,199,325 - 55,307,770 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36255,052,829 - 55,131,238 (-)NCBINCBI36hg18NCBI36
Build 34255,110,979 - 55,187,977NCBI
Celera255,039,812 - 55,118,248 (-)NCBI
Cytogenetic Map2p16.1NCBI
HuRef254,934,258 - 55,012,692 (-)NCBIHuRef
CHM1_1255,129,380 - 55,295,030 (-)NCBICHM1_1
Rtn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391129,642,898 - 29,694,414 (+)NCBIGRCm39mm39
GRCm381129,692,898 - 29,744,414 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1129,692,947 - 29,744,331 (+)EnsemblGRCm38mm10GRCm38
MGSCv371129,592,898 - 29,644,414 (+)NCBIGRCm37mm9NCBIm37
MGSCv361129,592,947 - 29,642,916 (+)NCBImm8
Celera1132,055,366 - 32,110,540 (+)NCBICelera
Cytogenetic Map11A3.3NCBI
Rtn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.014114,126,931 - 114,174,459 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14114,126,943 - 114,174,458 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014113,792,257 - 113,839,936 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414110,725,089 - 110,772,578 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114110,751,435 - 110,798,925 (+)NCBI
Celera14102,325,054 - 102,372,199 (+)NCBICelera
Cytogenetic Map14q22NCBI
Rtn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542428,061,346 - 28,125,838 (+)NCBIChiLan1.0ChiLan1.0
RTN4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A56,271,214 - 56,348,117 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v02A55,129,272 - 55,207,031 (-)NCBIMhudiblu_PPA_v0panPan3
Rtn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364911,407,414 - 1,474,031 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RTN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl386,180,047 - 86,252,122 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1386,180,022 - 86,252,126 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2391,013,117 - 91,202,777 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RTN4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11451,876,697 - 51,955,788 (+)NCBI
Rtn4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248336,514,409 - 6,584,061 (+)NCBI


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 reproductive system respiratory system adipose tissue
High 4
Medium 5 5 22 6 6 6 6 6 8 8 10 6
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_022424750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022424751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038489305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038489307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038489308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038489309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038551276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038551277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038551278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038551279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038615205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038615206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038615207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038615208 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038647721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038647729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038680597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038680598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038680599 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038680600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BK003959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BK003960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000004428   ⟹   ENSCAFP00000004096
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1055,885,125 - 55,936,574 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000045541   ⟹   ENSCAFP00000039140
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1055,885,125 - 55,936,574 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000083234   ⟹   ENSCAFP00000052194
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1055,885,308 - 55,919,286 (-)Ensembl
RefSeq Acc Id: XM_022424750   ⟹   XP_022280458
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11055,884,452 - 55,954,476 (-)NCBI
Sequence:
RefSeq Acc Id: XM_022424751   ⟹   XP_022280459
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11055,884,452 - 55,919,391 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_022280458   ⟸   XM_022424750
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_022280459   ⟸   XM_022424751
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCAFP00000039140   ⟸   ENSCAFT00000045541
RefSeq Acc Id: ENSCAFP00000004096   ⟸   ENSCAFT00000004428
RefSeq Acc Id: ENSCAFP00000052194   ⟸   ENSCAFT00000083234
Protein Domains
Reticulon


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000002771 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000004096 UniProtKB/TrEMBL
  ENSCAFP00000039140 UniProtKB/TrEMBL
  ENSCAFP00000052194 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000004428 UniProtKB/TrEMBL
  ENSCAFT00000045541 UniProtKB/TrEMBL
  ENSCAFT00000083234 UniProtKB/TrEMBL
InterPro Reticulon UniProtKB/TrEMBL
NCBI Gene RTN4 ENTREZGENE
Pfam Reticulon UniProtKB/TrEMBL
PROSITE RETICULON UniProtKB/TrEMBL
UniProt A0A5F4CH77_CANLF UniProtKB/TrEMBL
  E2R925_CANLF UniProtKB/TrEMBL
  J9P0R7_CANLF UniProtKB/TrEMBL
  Q6IG20_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:54541 ENTREZGENE