A330023F24Rik (RIKEN cDNA A330023F24 gene) - Rat Genome Database

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Gene: A330023F24Rik (RIKEN cDNA A330023F24 gene) Mus musculus
Analyze
Symbol: A330023F24Rik
Name: RIKEN cDNA A330023F24 gene
RGD ID: 1625476
MGI Page MGI
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: PREDICTED
Previously known as: C030002C11Rik
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391194,699,707 - 194,720,216 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1194,658,654 - 194,720,212 (+)EnsemblGRCm39 Ensembl
GRCm381195,017,399 - 195,037,908 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1194,976,375 - 195,037,904 (+)EnsemblGRCm38mm10GRCm38
MGSCv371196,843,593 - 196,864,102 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1201,917,163 - 201,937,718 (+)NCBICelera
Cytogenetic Map1H6NCBI
cM Map198.4NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21267068  


Genomics

Variants

.
Variants in A330023F24Rik
381 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:242
Count of miRNA genes:219
Interacting mature miRNAs:233
Transcripts:ENSMUST00000181226, ENSMUST00000181273, ENSMUST00000181947
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
11039528Ccc3_mcolitis susceptibility in the Collaborative Cross 3 (mouse)13680142195051546Mouse
1301632Bw8q1_mbody weight at 8 weeks QTL 1 (mouse)Not determined1161201261195154279Mouse
1301339Hdlq15_mHDL QTL 15 (mouse)Not determined1165873675195154279Mouse
1302158Fembrs5_mfemur breaking strength 5 (mouse)Not determined1167462514195154279Mouse
1559024Zit1_mzinc induced tolerance 1 (mouse)Not determined1167462514195154279Mouse
4141483Femwf7_mfemur work to failure 7 (mouse)Not determined167462514195154279Mouse
1558802Skmw6_mskeletal muscle weight 6 (mouse)Not determined1167954584195154279Mouse
1301251Scc3_mcolon tumor susceptibility 3 (mouse)Not determined1168213823195154279Mouse
1301132Mors1_mmodifier of obesity related sterility 1 (mouse)Not determined1170379500195154279Mouse
1357732Tbbmd1_mtotal body bone mineral density 1 (mouse)Not determined1171983110195154279Mouse
11049575Lmr8b_mleishmaniasis resistance 8b (mouse)1172303451195154279Mouse
1301652Cpfd2_mcerebellum pattern fissures (mouse)Not determined1172303451195154279Mouse
10043863Swrl5_mSWR lupus locus 5 (mouse)Not determined1172303451195154279Mouse
12880426V25Dq2_mvitamin D inactive form serum level QTL 2 (mouse)1172532197195154279Mouse
12880429V25Dq1_mvitamin D inactive form serum level QTL 1 (mouse)1172632197195154279Mouse
1302023Orch4_mautoimmune orchitis resistance 4 (mouse)Not determined1175211318195154279Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000181226
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,658,683 - 194,703,801 (+)Ensembl
GRCm38.p6 Ensembl1194,976,375 - 195,021,493 (+)Ensembl
RefSeq Acc Id: ENSMUST00000181273
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,699,706 - 194,719,237 (+)Ensembl
GRCm38.p6 Ensembl1195,017,398 - 195,036,929 (+)Ensembl
RefSeq Acc Id: ENSMUST00000181947
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,658,693 - 194,709,736 (+)Ensembl
GRCm38.p6 Ensembl1194,976,385 - 195,027,428 (+)Ensembl
RefSeq Acc Id: ENSMUST00000194584
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,706,417 - 194,720,212 (+)Ensembl
GRCm38.p6 Ensembl1195,024,109 - 195,037,904 (+)Ensembl
RefSeq Acc Id: ENSMUST00000242977
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,658,654 - 194,703,808 (+)Ensembl
RefSeq Acc Id: ENSMUST00000245185
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,658,686 - 194,703,808 (+)Ensembl
RefSeq Acc Id: ENSMUST00000245923
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,699,688 - 194,706,907 (+)Ensembl
RefSeq Acc Id: ENSMUST00000246662
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,699,707 - 194,706,924 (+)Ensembl
RefSeq Acc Id: ENSMUST00000246952
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1194,699,730 - 194,706,914 (+)Ensembl
RefSeq Acc Id: NR_015566
RefSeq Status: PREDICTED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391194,699,707 - 194,720,216 (+)NCBI
GRCm381195,017,399 - 195,037,908 (+)ENTREZGENE
MGSCv371196,843,593 - 196,864,102 (+)RGD
Celera1201,917,163 - 201,937,718 (+)RGD
cM Map1 ENTREZGENE
Sequence:
Protein Sequences
GenBank Protein BAE42423 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Promoters
RGD ID:6876186
Promoter ID:EPDNEW_M1544
Type:single initiation site
Name:A330023F24Rik_1
Description:Mus musculus RIKEN cDNA A330023F24 gene , long non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M1545  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381195,017,422 - 195,017,482EPDNEW
RGD ID:6876188
Promoter ID:EPDNEW_M1545
Type:multiple initiation site
Name:A330023F24Rik_2
Description:Mus musculus RIKEN cDNA A330023F24 gene , long non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M1544  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381195,018,598 - 195,018,658EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000096929 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000181273 ENTREZGENE
MGD MGI:2443958 ENTREZGENE
NCBI Gene 320977 ENTREZGENE
PhenoGen A330023F24Rik PhenoGen
RNAcentral URS000075D837 RNACentral
UniProt Q3TB91_MOUSE UniProtKB/TrEMBL