MmuINT0032888 @ mm10
Intron Retention
Gene
ENSMUSG00000021279 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:MGI Symbol;Acc:MGI:2136459]
Coordinates
chr12:111295056-111295856:-
Coord C1 exon
chr12:111295739-111295856
Coord A exon
chr12:111295162-111295738
Coord C2 exon
chr12:111295056-111295161
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:ENSMUST00000041965:34
Average complexity
IR
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
Other Skipping 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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types