MmuINT0032867 @ mm9
Intron Retention
Gene
ENSMUSG00000021279 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:MGI Symbol;Acc:MGI:2136459]
Coordinates
chr12:112556647-112557084:-
Coord C1 exon
chr12:112556840-112557084
Coord A exon
chr12:112556753-112556839
Coord C2 exon
chr12:112556647-112556752
Length
87 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
TCTCTCCTCCACCTCCACAGGCA
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTAAAGCAAGGAGGCCGGGGGCCAGGGGCCGCGTCGGAACATCAGCAGGAGATCTCCAAAATCAGGTCGGAGCTCGAGAAGAAAGTCTTGTTCTACGAGGAGGAGCTGGTGCGCCGAGAGGCCTCCCACGTGCTAGAAGTAAAGAACGTGAAGAAGGAAGTCCACGACTCCGAAAGCCACCAGTTGGCCCTGCAGAAAGAGGTCCTGATGCTGAAAGACAAGTTAGAAAAGTCAAAGCGAGAACG
Seq A exon
GTAAGCATGTGATGCCCAGGTGAAAACAGCAGCCCGCTGCCACGCCGCAGGCACGTGAGCGAGGCGCTCTCTCCTCCACCTCCACAG
Seq C2 exon
GCACAGTGAGATGGAGGAGGCCATAGGCACCGTGAAGGACAAGTACGAACGGGAGAGGGCCATGCTGTTCGATGAGAACAAGAAGTTAACAGCAGAAAACGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021279-Cdc42bpb:NM_183016:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.439 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(22.8=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(9.9=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:
AGGAAGTCCACGACTCCGAAA
R:
TTCTCATCGAACAGCATGGCC
Band lengths:
169-256
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: