Selenon (selenoprotein N) - Rat Genome Database

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Gene: Selenon (selenoprotein N) Rattus norvegicus
Analyze
Symbol: Selenon
Name: selenoprotein N
RGD ID: 1304574
Description: Predicted to enable calcium ion binding activity. Predicted to be involved in several processes, including positive regulation of response to oxidative stress; skeletal muscle fiber development; and skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration. Predicted to act upstream of or within several processes, including cellular response to caffeine; positive regulation of skeletal muscle cell proliferation; and response to muscle activity involved in regulation of muscle adaptation. Predicted to be active in endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in rigid spine muscular dystrophy 1. Orthologous to human SELENON (selenoprotein N); INTERACTS WITH gentamycin; paracetamol; thioacetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC362624; LOC689675; selenoprotein N, 1; Sepn1; similar to selenoprotein N, 1 isoform 2 precursor
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
GRCr85152,032,330 - 152,046,707 (-)NCBIGRCr8
mRatBN7.25146,748,638 - 146,764,656 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5146,748,652 - 146,763,059 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.05152,748,497 - 152,765,489 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5152,750,284 - 152,762,165 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05156,534,095 - 156,553,701 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45153,295,598 - 153,308,305 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15153,305,727 - 153,317,685 (-)NCBI
Celera5145,163,547 - 145,177,184 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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. Mutations in SEPN1 cause congenital muscular dystrophy with spinal rigidity and restrictive respiratory syndrome. Moghadaszadeh B, etal., Nat Genet. 2001 Sep;29(1):17-8.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:12700173   PMID:15632090   PMID:18713863   PMID:19557870   PMID:21131290   PMID:21858002   PMID:23325319   PMID:25452428  


Genomics

Comparative Map Data
Selenon
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85152,032,330 - 152,046,707 (-)NCBIGRCr8
mRatBN7.25146,748,638 - 146,764,656 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5146,748,652 - 146,763,059 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.05152,748,497 - 152,765,489 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5152,750,284 - 152,762,165 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05156,534,095 - 156,553,701 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45153,295,598 - 153,308,305 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15153,305,727 - 153,317,685 (-)NCBI
Celera5145,163,547 - 145,177,184 (-)NCBICelera
Cytogenetic Map5q36NCBI
SELENON
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38125,800,193 - 25,818,221 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl125,800,193 - 25,818,221 (+)EnsemblGRCh38hg38GRCh38
GRCh37126,126,684 - 26,144,712 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36125,999,254 - 26,017,300 (+)NCBINCBI36Build 36hg18NCBI36
Celera124,522,754 - 24,540,804 (+)NCBICelera
Cytogenetic Map1p36.11NCBI
HuRef124,383,830 - 24,400,647 (+)NCBIHuRef
CHM1_1126,240,110 - 26,257,988 (+)NCBICHM1_1
T2T-CHM13v2.0125,637,681 - 25,655,660 (+)NCBIT2T-CHM13v2.0
Selenon
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394134,265,203 - 134,279,477 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4134,265,203 - 134,279,477 (-)EnsemblGRCm39 Ensembl
GRCm384134,537,892 - 134,552,166 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4134,537,892 - 134,552,166 (-)EnsemblGRCm38mm10GRCm38
MGSCv374134,093,807 - 134,108,081 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364133,809,971 - 133,814,432 (-)NCBIMGSCv36mm8
Celera4132,720,626 - 132,734,950 (-)NCBICelera
Cytogenetic Map4D3NCBI
cM Map466.85NCBI
Selenon
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554525,296,035 - 5,309,102 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554525,295,716 - 5,311,113 (+)NCBIChiLan1.0ChiLan1.0
SELENON
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21201,055,902 - 201,073,810 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11200,153,818 - 200,171,737 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0125,058,907 - 25,076,817 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1126,126,602 - 26,144,249 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl126,127,125 - 26,141,745 (+)Ensemblpanpan1.1panPan2
SELENON
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1274,134,448 - 74,149,585 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha270,709,452 - 70,725,728 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0274,696,398 - 74,712,673 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl274,696,398 - 74,713,754 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1271,519,985 - 71,536,194 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0272,526,878 - 72,542,967 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0273,530,771 - 73,547,043 (-)NCBIUU_Cfam_GSD_1.0
Selenon
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505844,556,838 - 44,571,856 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647410,381,743 - 10,394,502 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647410,381,646 - 10,396,638 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SELENON
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl683,246,934 - 83,262,743 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1683,246,934 - 83,262,748 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2676,814,410 - 76,821,459 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SELENON
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120106,953,286 - 106,971,249 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660339,444,168 - 9,464,510 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Selenon
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247649,892,176 - 9,903,990 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247649,892,161 - 9,905,984 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Selenon
39 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:41
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000022921
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat

Markers in Region
BI280247  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25146,748,655 - 146,748,826 (+)MAPPERmRatBN7.2
Rnor_6.05152,748,515 - 152,748,685NCBIRnor6.0
Rnor_5.05156,534,113 - 156,534,283UniSTSRnor5.0
RGSC_v3.45153,293,920 - 153,294,090UniSTSRGSC3.4
Celera5145,163,565 - 145,163,735UniSTS
RH 3.4 Map5992.5UniSTS
Cytogenetic Map5q36UniSTS
RH128543  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25146,748,758 - 146,748,959 (+)MAPPERmRatBN7.2
Rnor_6.05152,748,618 - 152,748,818NCBIRnor6.0
Rnor_5.05156,534,216 - 156,534,416UniSTSRnor5.0
RGSC_v3.45153,294,023 - 153,294,223UniSTSRGSC3.4
Celera5145,163,668 - 145,163,868UniSTS
RH 3.4 Map5992.8UniSTS
Cytogenetic Map5q36UniSTS


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 1 43 36 26 12 26 2 4 73 30 34 11 2
Low 2 21 15 7 15 6 7 1 5 7 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022921   ⟹   ENSRNOP00000022921
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5146,748,652 - 146,763,059 (-)Ensembl
Rnor_6.0 Ensembl5152,750,284 - 152,762,165 (-)Ensembl
RefSeq Acc Id: NM_001427657   ⟹   NP_001414586
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85152,032,330 - 152,046,707 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414586 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL80734 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000022921.7
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000022921   ⟸   ENSRNOT00000022921
RefSeq Acc Id: NP_001414586   ⟸   NM_001427657
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LTZ2-F1-model_v2 AlphaFold F1LTZ2 1-471 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304574 AgrOrtholog
BioCyc Gene G2FUF-39562 BioCyc
Ensembl Genes ENSRNOG00000017078 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022921.7 UniProtKB/TrEMBL
InterPro EF_hand_dom UniProtKB/TrEMBL
NCBI Gene 362624 ENTREZGENE
PANTHER SELENOPROTEIN N UniProtKB/TrEMBL
  UNCHARACTERIZED UniProtKB/TrEMBL
PhenoGen Selenon PhenoGen
PROSITE EF_HAND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017078 RatGTEx
UniProt F1LTZ2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-09-28 Selenon  selenoprotein N  Sepn1  selenoprotein N, 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-08 Sepn1  selenoprotein N, 1   LOC689675  similar to selenoprotein N, 1 isoform 2 precursor  Data merged from RGD:1589903 737654 APPROVED
2008-04-30 Sepn1  selenoprotein N, 1   Sepn1_predicted  selenoprotein N, 1 (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 LOC689675  similar to selenoprotein N, 1 isoform 2 precursor  LOC683750  similar to selenoprotein N, 1 isoform 2 precursor  Data merged from RGD:1583344 1643240 APPROVED
2006-11-20 LOC689675  similar to selenoprotein N, 1 isoform 2 precursor      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC683750  similar to selenoprotein N, 1 isoform 2 precursor      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Sepn1_predicted  selenoprotein N, 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED