MmuINT0032888 @ mm9
Intron Retention
Gene
ENSMUSG00000021279 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:MGI Symbol;Acc:MGI:2136459]
Coordinates
chr12:112533267-112534067:-
Coord C1 exon
chr12:112533950-112534067
Coord A exon
chr12:112533373-112533949
Coord C2 exon
chr12:112533267-112533372
Length
577 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGT
5' ss Score
8.29
3' ss Seq
GTGCTGCTCTCTTCCCCCAGAGT
3' ss Score
11.3
Exon sequences
Seq C1 exon
AGAGATGCTCAGAGACCCCGAACTGCGATCCAAAATGATATCCAACCCAACCAACTTCAACCACGTGGCTCACATGGGTCCTGGGGATGGCATGCAGGTGCTCATGGACCTGCCTCTG
Seq A exon
GTGCGTGCGCAGCCAGGCCGTGGGCGTGGGACTCAGCTAAGTGATGGGCATGGGGCTCAGCTGGGCCATAGGCGTGGGACTCAGGTGATGGGCATGGAGCTCAGCTGGGCCATGGGCGTGGGACTCAGTCAAGTGATGGGCATGGGGCTCAGCCGGTGTGAGCGTGGGTAGGCACATGTGGGGTCTGGCTGCCTGCCCTGCCTCACTGTGCCATGCTGACCCGGGAAACCTCTGCATTGCTGCTGGGCCACTCCTGATCCTGAGATGGGTGTCTATATGAGTAGTCCACCCTGTGTTCCCTTTAGGAAACAGTTGTCAAGAAAGGGTTTCCAGCTCCTTGGTGTGAGATAACAGTTTTATCTTTATTTTAAACAGTGCATTTTCCGTAGGGTCTTTCTACAGTTGGCATGGCTGGTTCTTAGCTCAGAAGTATTGGTGGTATGAACATAGCCACTTTCCATTGTCAGCCATATCCAGGGCCTGCAGCTGGCCTGTTCAATGCCATCCACTGTGGTGGCCCCACTGTGGTTCTGTCTACGTTCATATGCCAGTCTCATGTGCTGCTCTCTTCCCCCAG
Seq C2 exon
AGTGCTGCACCCACTGTCCAGGAGGAGAAGCAGGGCCCTACCCCAGCAGGCCTCCCCCGGCAGCCGCCATCCAGGAGCAAGCCCTATGTCTCGTGGCCGTCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021279-Cdc42bpb:NM_183016:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0078623=PBD=PU(61.4=67.5)
A:
NA
C2:
PF0078623=PBD=PD(34.1=41.7)
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:
AGAGATGCTCAGAGACCCCGA
R:
GACGACGGCCACGAGACATAG
Band lengths:
222-799
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: