5330416C01Rik (RIKEN cDNA 5330416C01 gene) - Rat Genome Database

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Gene: 5330416C01Rik (RIKEN cDNA 5330416C01 gene) Mus musculus
Analyze
Symbol: 5330416C01Rik
Name: RIKEN cDNA 5330416C01 gene
RGD ID: 11083082
MGI Page MGI
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: Gm532
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391397,870,006 - 97,883,919 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1397,870,006 - 97,883,919 (-)EnsemblGRCm39 Ensembl
GRCm381397,733,498 - 97,747,411 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1397,733,498 - 97,747,411 (-)EnsemblGRCm38mm10GRCm38
MGSCv371398,514,649 - 98,517,328 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361398,844,851 - 98,847,536 (-)NCBIMGSCv36mm8
Celera13101,359,895 - 101,362,575 (-)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1351.4NCBI
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:21267068   PMID:24316575  


Genomics

Variants

.
Variants in 5330416C01Rik
592 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:244
Count of miRNA genes:223
Interacting mature miRNAs:231
Transcripts:ENSMUST00000123535, ENSMUST00000125960, ENSMUST00000144993
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
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20477612112898424Mouse
4142314Tailaq3_mtail length adjusted QTL 3 (mouse)Not determined55720354112431103Mouse
4140959W10q17_mweight 10 weeks QTL 17 (mouse)Not determined55720354112431103Mouse
4141992W6q16_mweight 6 weeks QTL 16 (mouse)Not determined55720354112431103Mouse
4142241Tailq3_mtail length QTL 3 (mouse)Not determined55720354112431103Mouse
10402414Sgp5_mserum gp70 production 5 (mouse)Not determined1356470456105422186Mouse
1300941Skl6_mskeletal size (tail length) 6 (mouse)Not determined136425082198250945Mouse
1301949Skull20_mskull morphology 20 (mouse)Not determined136425082198250945Mouse
1301445Listr2_mlisteriosis resistance 2 (mouse)Not determined1366744601100744746Mouse
1301593Heal8_mwound healing/regeneration 8 (mouse)Not determined1368053999102054119Mouse
14696726Kidrq3_mkidney weight, right QTL 3 (mouse)1368217066102217066Mouse
14747007Mancz11_mmandible centroid size 11 (mouse)1370111284104111284Mouse
4141266Mol3_mmodifier of LPS-response 3 (mouse)Not determined76132600112431103Mouse
12880414V125Dq10_mvitamin D active form serum level QTL 10 (mouse)1378036508112036508Mouse
10043997Bw40_mbody weight QTL 40 (mouse)Not determined1479239045113239162Mouse
10045623Heal18_mwound healing regeneration 18 (mouse)Not determined1379239045113239162Mouse
1558741Ses10_msalmonella enteritidis susceptibility 10 (mouse)Not determined1382739968116740106Mouse
4142465Pbwg17_mpostnatal body weight growth 17 (mouse)Not determined1383876060117876256Mouse
14700691Cisaq1_mcoxsackieviral infection serum ALT QTL 1 (mouse)1386148119120461536Mouse
4140995Fbtq6_mfemoral bone trait QTL 6 (mouse)Not determined1386341617120341758Mouse
4141728Egaq4_mearly growth adjusted QTL 4 (mouse)Not determined87901985112431103Mouse
1300939Hrtfm6_mheart failure modifier 6 (mouse)Not determined1391383692120883175Mouse
1300876Tanidd2_mtally ho associated non-insulin dependednt diabetes mellitus 2 (mouse)Not determined1391965303120883175Mouse
1301142Heal2_mwound healing/regeneration 2 (mouse)Not determined1393875267120883175Mouse
4142338Skmw18_mskeletal muscle weight 18 (mouse)Not determined1394528399120883175Mouse
1558763Gct9_mgranulosa cell tumorigenesis 9 (mouse)Not determined1395036824120883175Mouse
1357468Rplag_mreduced platelet aggregation (mouse)Not determined1395502130120883175Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000123535
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1397,881,202 - 97,883,887 (-)Ensembl
GRCm38.p6 Ensembl1397,744,694 - 97,747,379 (-)Ensembl
RefSeq Acc Id: ENSMUST00000125960
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1397,871,855 - 97,879,629 (-)Ensembl
GRCm38.p6 Ensembl1397,735,347 - 97,743,121 (-)Ensembl
RefSeq Acc Id: ENSMUST00000144993
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1397,870,006 - 97,883,919 (-)Ensembl
GRCm38.p6 Ensembl1397,733,498 - 97,747,411 (-)Ensembl
RefSeq Acc Id: NR_152140
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391397,870,006 - 97,883,919 (-)NCBI
GRCm381397,733,498 - 97,747,411 (-)NCBI
Sequence:
RefSeq Acc Id: NR_152141
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391397,881,202 - 97,883,919 (-)NCBI
GRCm381397,744,694 - 97,747,411 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein BAC26976 (Get FASTA)   NCBI Sequence Viewer  
  EDL00866 (Get FASTA)   NCBI Sequence Viewer  
  EDL00867 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Promoters
RGD ID:15094353
Promoter ID:EPDNEWNC_M2263
Type:initiation region
Name:5330416C01Rik_1
Description:RIKEN cDNA 5330416C01 gene [Source:MGISymbol;Acc:MGI:2685378]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381397,747,379 - 97,747,439EPDNEWNC
RGD ID:8681100
Promoter ID:EPDNEW_M18581
Type:multiple initiation site
Name:5330416C01Rik_1
Description:Mus musculus RIKEN cDNA 5330416C01 gene , transcript variant2, 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
GRCm381397,747,379 - 97,747,439EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000054944 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000123535 ENTREZGENE
  ENSMUST00000144993 ENTREZGENE
MGD MGI:2685378 ENTREZGENE
NCBI Gene 5330416C01Rik ENTREZGENE
PhenoGen 5330416C01Rik PhenoGen
RNAcentral URS0000782908 RNACentral
  URS00009C1AA4 RNACentral
UniProt Q8BSU9_MOUSE UniProtKB/TrEMBL