MmuINT0032878 @ mm10
Intron Retention
Gene
ENSMUSG00000021279 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:MGI Symbol;Acc:MGI:2136459]
Coordinates
chr12:111304972-111305802:-
Coord C1 exon
chr12:111305666-111305802
Coord A exon
chr12:111305112-111305665
Coord C2 exon
chr12:111304972-111305111
Length
554 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TGCTCACTGTTGGTCTGTAGGTC
3' ss Score
8.38
Exon sequences
Seq C1 exon
TCTGTGCATTTTCCTGCCATGTGTCCTGCAAAGACAGCGCTCCCCAGGTGTGCCCCATACCTCCTGAGCAGTCCAAGAGGCCTCTTGGCGTAGACGTGCAGAGGGGCATAGGCACGGCCTACAAGGGCTACGTCAAG
Seq A exon
GTAGGAGGAGCCCACTTCTGGCTCATGGCCCCCGTGGCTCACCTTTCATCAGGTCAGCTCTGAGCGTCTGTCTTGTGGTGAGGAGCAGTCCCTTTGCTGCCTGTCACGGGGCGAGGGTCTCAGGCACAGCTGCTGCTGTAAATGGCTAAGAACCCGAGAGACCCTTTGGACATGGAGAGTCCACCTACAGCTCCCACTGGGCTTCTGGCCAAATCAGGGTTCCAAAGCCAAGTGTTGCTTGCAAACCACGGGCTCTCAGGCTCACCCATGCCCCATCCAGTCGCAGCCCCGGGATGCGGTGCAATCCTTGTTGCCTTGGGTTGCCTTCCTGTTAACAAGCTCCTCCCATTCAGGCCCGAGCCTCCCAAGCCAGGACAAGGGCTTTTCTACCACTCTGGGAAGAGGGTTGATGGGAGCGCAGTCCCTGGGGACCCAGGACAGTCAGATAGAATCAGGTGGACACAGACTGAGAGAAACGTTAAGGGTCTGGCCGTCTCCGCCTGCGCTGCCCAGCTCTGTGGCCCAGGATGAACGTGCTCACTGTTGGTCTGTAG
Seq C2 exon
GTCCCAAAGCCCACAGGCGTGAAGAAAGGATGGCAGAGGGCTTACGCCGTGGTCTGTGACTGCAAACTCTTCCTGTACGACCTGCCAGAAGGGAAGTCGACCCAGCCCGGTGTCGTTGCCAGTCAAGTCTTGGACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021279:ENSMUST00000041965:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(37.7=43.5)
A:
NA
C2:
NO
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:
GCATTTTCCTGCCATGTGTCC
R:
GAGGTCCAAGACTTGACTGGC
Band lengths:
270-824
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