Spanxn4 (SPANX family, member N4) - Rat Genome Database

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Gene: Spanxn4 (SPANX family, member N4) Mus musculus
Analyze
Symbol: Spanxn4
Name: SPANX family, member N4
RGD ID: 1619974
MGI Page MGI
Description:
Type: ncrna (Ensembl: processed_pseudogene)
RefSeq Status: VALIDATED
Previously known as: 1700047L15Rik
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391262,734,573 - 62,735,122 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1262,734,608 - 62,735,031 (+)EnsemblGRCm39 Ensembl
GRCm381262,687,787 - 62,688,336 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1262,687,822 - 62,688,245 (+)EnsemblGRCm38mm10GRCm38
MGSCv371263,788,791 - 63,789,311 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361263,605,811 - 63,606,341 (+)NCBIMGSCv36mm8
Celera1263,863,688 - 63,864,208 (+)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1226.7NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:16141072   PMID:16141073   PMID:21677750  


Genomics

Variants

.
Variants in Spanxn4
20 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:38
Count of miRNA genes:37
Interacting mature miRNAs:37
Transcripts:ENSMUST00000172433
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121166000197176774Mouse
1558978Cplaq10_mcircadian period of locomotor activity 10 (mouse)Not determined121534102679040364Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121759644780956883Mouse
1301989Hdlq18_mHDL QTL 18 (mouse)Not determined122916068563160884Mouse
1300636Gct2_mgranulosa cell tumorigenesis 2 (mouse)Not determined122916068563160884Mouse
4141843Moen3_mmodifier of engrailed QTL 3 (mouse)Not determined122980158463801733Mouse
14747008Mancz10_mmandible centroid size 10 (mouse)122986352263863522Mouse
10402492Dipa8_mdrug induced psychomotor activation 8 (mouse)Not determined123493387268934019Mouse
1300818Bbaa10_mB.burgdorferi-associated arthritis 10 (mouse)Not determined123509100465511019Mouse
4142002Tbqt3_mtibia bone quality traits 3 (mouse)Not determined1235285496109936243Mouse
1357479Splwt1_mspleen weight 1 (mouse)Not determined124169317590887526Mouse
1357757Lnopy2_mlens opacity 2 (mouse)Not determined125284662686846796Mouse
1357749Vtbt13_mvertebral trabecular bone trait 13 (mouse)Not determined125313200287132145Mouse
12832727Ahrq1_mairway hyperresponsiveness QTL 1 (mouse)125469591082665939Mouse
13504832Bacszq2_mbaculum size QTL 2 (mouse)125694579875345787Mouse
27226728Tibl20_mtibia length 20, 16 week (mouse)125914678693866774Mouse
27226776Tibl6_mtibia length 6, 5 week (mouse)126064678692666774Mouse
10043948Pbft6_mpercent body fat 6 (mouse)Not determined126120542795205427Mouse
1301476Pbwg12_mpostnatal body weight growth 12 (mouse)Not determined126204016496040364Mouse
27226797Scvln19_msacral vertebrae length 2, 16 week (mouse)126214678699466259Mouse
10043895Bw20_mbody weight QTL 20 (mouse)Not determined126230825296308252Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000172433
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1262,734,608 - 62,735,031 (+)Ensembl
GRCm38.p6 Ensembl1262,687,822 - 62,688,245 (+)Ensembl
RefSeq Acc Id: NR_131949
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391262,734,573 - 62,735,122 (+)NCBI
GRCm381262,687,787 - 62,688,336 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein ACC93878 (Get FASTA)   NCBI Sequence Viewer  
  EDL36661 (Get FASTA)   NCBI Sequence Viewer  

Promoters
RGD ID:8678356
Promoter ID:EPDNEW_M17209
Type:multiple initiation site
Name:Spanxn4_1
Description:Mus musculus SPANX family, member N4 , long non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381262,687,798 - 62,687,858EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000091396 Ensembl
MGD MGI:1920559 ENTREZGENE
NCBI Gene 73309 ENTREZGENE
PhenoGen Spanxn4 PhenoGen
RNAcentral URS00008E39E1 RNACentral
UniProt C0IQA4_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-05-26 Spanxn4  SPANX family, member N4  1700047L15Rik  RIKEN cDNA 1700047L15 gene  Symbol and/or name change 5135510 APPROVED