MmuINT0032908 @ mm9
Intron Retention
Gene
ENSMUSG00000024769 | Cdc42bpg
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:MGI Symbol;Acc:MGI:2652845]
Coordinates
chr19:6309126-6309382:+
Coord C1 exon
chr19:6309126-6309217
Coord A exon
chr19:6309218-6309298
Coord C2 exon
chr19:6309299-6309382
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GCCTTGCTTCATCCCCTCAGGTT
3' ss Score
10.11
Exon sequences
Seq C1 exon
CCAGCCCCTTTGTAACAAAAGTGAAAGAGCTGCGTCTACAGAGAGATGACTTTGAGATCTTGAAGGTGATTGGCAGAGGGGCCTTTGGGGAG
Seq A exon
GTAAGTAAGCCTTGGGGTGGGTGAGGAGGAGGGGCCTTGCACTTGGTCTGGTCTAGACCAGGCCTTGCTTCATCCCCTCAG
Seq C2 exon
GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024769-Cdc42bpg:NM_001033342:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(10.5=41.9)
A:
NA
C2:
PF0006920=Pkinase=FE(10.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCCCCTTTGTAACAAAAGTG
R:
CCCTCTTCAGCATCTCCCACT
Band lengths:
171-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: