6030469F06Rik (RIKEN cDNA 6030469F06 gene) - Rat Genome Database

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Gene: 6030469F06Rik (RIKEN cDNA 6030469F06 gene) Mus musculus
Analyze
Symbol: 6030469F06Rik
Name: RIKEN cDNA 6030469F06 gene
RGD ID: 2314269
MGI Page MGI
Description:
Type: ncrna (Ensembl: transcribed_unitary_pseudogene)
RefSeq Status: VALIDATED
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
NCBI Annotation Information: Note: This gene was thought to be a pseudogene, but based on the AK134407.1 sequence alignment to this locus and to the human NM_007356.2 (LAMB4), and synteny data, this gene is probably the mouse Lamb4. Compared to human NM_007356.2 (34 exons), the 4-exon AK134407.1 is very partial. Because of lacking of sufficient data, this gene is currently represented as non-coding. [30 Apr 2013]
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391231,218,861 - 31,235,921 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1231,218,861 - 31,235,921 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl1231,192,759 - 31,251,084 (+)EnsemblGRCm39 Ensembl
GRCm381231,168,862 - 31,185,922 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,142,760 - 31,201,085 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,168,862 - 31,185,901 (+)EnsemblGRCm38mm10GRCm38
MGSCv371231,853,726 - 31,870,788 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361231,818,364 - 31,925,173 (+)NCBIMGSCv36mm8
Celera1232,616,969 - 32,634,044 (+)NCBICelera
Cytogenetic Map12A2NCBI
cM Map1213.19NCBI
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  


Genomics

Variants

.
Variants in 6030469F06Rik
702 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:68
Interacting mature miRNAs:69
Transcripts:ENSMUST00000179160
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
1301925Ath6_matherosclerosis 6 (mouse)Not determined12132758756Mouse
1301207Circp1_mcircadian photosensitivity 1 (mouse)Not determined12133430339Mouse
4141660Nbwa1_mNZB and NZW autoimmunity 1 (mouse)Not determined1234013434340302Mouse
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
1301163Eae16_msusceptibility to experimental allergic encephalomyelitis 16 (mouse)Not determined12772315841723301Mouse
13208568Bmiq11_mbody mass index QTL 11 (mouse)12805000040049999Mouse
1301037Cd4ts5_mCD4 T cell subset 5 (mouse)Not determined12835244442352581Mouse
1301723Fcsa7_mfemoral cross-sectional area 7 (mouse)Not determined12949100443491112Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
14746972Manh72_mmandible shape 72 (mouse)121061528144615281Mouse
10401249Bglu15_mblood glucose level 15 (mouse)Not determined121062064244620809Mouse
13524843Ppiq8_mprepulse inhibition QTL 8 (mouse)121104319450945796Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121166000197176774Mouse
4141516slwr_mslowlearner (mouse)Not determined1239247546392614Mouse
13524839Ppiq10_mprepulse inhibition QTL 10 (mouse)121304319554945798Mouse
10043977Obq34_mobesity QTL 34 (mouse)Not determined121514733149147331Mouse
1558978Cplaq10_mcircadian period of locomotor activity 10 (mouse)Not determined121534102679040364Mouse
26884413Bzwq9_mbi-zygomatic width QTL 9, 10 week (mouse)121615000147746783Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121759644780956883Mouse
15039339Nmrs29_mNAFLD-associated magnetic resonance shift 29 (mouse)121782585251825852Mouse
10043848Hdlq90_mHDL QTL 90 (mouse)Not determined121783993951840081Mouse
1300870Ath18_matherosclerosis 18 (mouse)Not determined121825996652260067Mouse
12904956Edlmmq10_mextensor digitorum longus muscle mass QTL 10 (mouse)121973983353739833Mouse
1302172Skts5_mskin tumor susceptibility 5 (mouse)Not determined122214886656149016Mouse
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


Expression


Sequence


RefSeq Acc Id: ENSMUST00000179160
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1231,234,622 - 31,235,176 (+)Ensembl
GRCm38.p6 Ensembl1231,184,623 - 31,185,177 (+)Ensembl
RefSeq Acc Id: ENSMUST00000218473
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1231,218,861 - 31,235,921 (+)Ensembl
GRCm38.p6 Ensembl1231,168,862 - 31,185,922 (+)Ensembl
RefSeq Acc Id: ENSMUST00000218642
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1231,192,759 - 31,251,084 (+)Ensembl
GRCm38.p6 Ensembl1231,142,760 - 31,201,085 (+)Ensembl
RefSeq Acc Id: NR_102715
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391231,218,861 - 31,235,921 (+)NCBI
GRCm381231,168,862 - 31,185,922 (+)NCBI
Celera1232,616,970 - 32,634,043 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein BAE22132 (Get FASTA)   NCBI Sequence Viewer  

Promoters
RGD ID:15094081
Promoter ID:EPDNEWNC_M1996
Type:single initiation site
Name:6030469F06Rik_1
Description:RIKEN cDNA 6030469F06 gene [Source:MGISymbol;Acc:MGI:3588235]
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
GRCm381231,168,851 - 31,168,911EPDNEWNC
RGD ID:6822596
Promoter ID:MM_KWN:11428
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lung
Transcripts:ENSMUST00000101508
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361231,855,801 - 31,856,552 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000095953 Ensembl
  ENSMUSG00000121864 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000218473 ENTREZGENE
MGD MGI:3588235 ENTREZGENE
NCBI Gene 100043065 ENTREZGENE
PhenoGen 6030469F06Rik PhenoGen
RNAcentral URS000075BB01 RNACentral
UniProt Q3UYS9_MOUSE UniProtKB/TrEMBL