MmuINT0032894 @ mm9
Intron Retention
Gene
ENSMUSG00000021279 | Cdc42bpb
Description
CDC42 binding protein kinase beta [Source:MGI Symbol;Acc:MGI:2136459]
Coordinates
chr12:112564171-112565827:-
Coord C1 exon
chr12:112565627-112565827
Coord A exon
chr12:112564420-112565626
Coord C2 exon
chr12:112564171-112564419
Length
1207 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TGGCTGCCCCTCCTCCCCAGGAG
3' ss Score
9.49
Exon sequences
Seq C1 exon
GTTCAGTCTTCCGTGGCCGTGGGCACACCTGACTACATCTCACCAGAGATCCTGCAGGCCATGGAGGATGGCATGGGCAAATACGGGCCCGAGTGTGACTGGTGGTCGCTGGGCGTCTGCATGTATGAGATGCTATACGGAGAAACCCCGTTCTACGCAGAGTCTCTGGTGGAGACATACGGGAAGATCATGAACCACGAG
Seq A exon
GTGAGATGCGAACGCTGTTCCAGCGCCTTCACGGGCTGGGGTGGGAGGGACAGGGAGACAGGGGCACACATGATATGGGGACACTGCACACATGGGACAGAAAGGAAGGCATGCTTCAAAGATGTCTCCTGTGTTCCAGCCCTGCAGTGCGTTTCCCATTGTGTTAGCCAAGCGCTGTGCGGGCCCCATGGCACACTTGTCTGTGCTCCTTGGTATTTTGAGAGCCAGAAATCAAGTCTGTCAGGCTCACTGTGGGCAGTACTTAACTGCTCAGCTATGATAGTTAATTAATTTACTTATGTATGTGTGACACGTGTGTGGATGTATGTGCCACAGTGCATATTGGAAGCCAGAGCATGACTTTGTGGCGTTTCCTCCTCTCTCTGTTGGTTCTGGGATCAAACTCCAAACACCAGGCGCCGCGAGGACAGGAATGGAACTGGTCCCCATGTACGGTGGCTTACCTGAGCTGTGGGAAGTGCACCTGGAACTCGGTTAGGGTTAGGTGTATTTTACCCACAAGCTGTCTTGCAGGCCCAAAGGGAATGCTTTTTTTGTTTGCCATTTTGGAATTAAAATTCTTTTAGCCAGTGGGGCAGTGGTGGCACACACCTTTGATCCCAGCACTCAGGAGGCAGAGGAAGAGGCTGGTGGATCTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTTCTAGGACAGCCAGGACTGATGTGCTAATTAATATCAAATAATATTAATCTATATATTTTGAGCGGATAAACCAAACAGCAGACCAGGCCAAGGTAGTTCCACGTGGGAGAGGTTTATTGTGCAGAGATAGAGGGGCGGTGAAGTGGGTAGAAGGGCAGAGAAGAGGAAAAAGAGAGAAAGGGGGAGAGAAGAAAGAAAGAGAAAGCGAGGAGGGGGTGATCCCCTAATTTATACAGAAAATGACGTCACACCAGTGAGGGTGGGAACTGAGCCAAGTGGGTTGTGGGATTGAGGGTCGTTGTCCTGGCAATGCAGGTCAAGGGTCACATGGTTAGGCTGGGGCTTGGAGTGTCCTGGTACTAACAAGGACTACACAGAGAAACCCTGTCTCAGGGCTTGGGGGTGGGGGAATTCCCTAGCTTCAGCTTACACCTGGTTAATGATGAAGTCAGGATTATTCTTGTGCTGTCCTCGACTTGGGTTTTCCTGACAGTCTTTGGCTGCCCCTCCTCCCCAG
Seq C2 exon
GAGCGGTTTCAGTTCCCATCCCATGTCACCGATGTCTCTGAAGAAGCAAAAGACCTTATCCAGAGACTAATATGCAGCAGAGAGCGCCGACTTGGGCAGAATGGAATAGAAGACTTTAAGAAACACGCATTCTTTGAAGGTCTGAATTGGGAGAATATACGAAACCTTGAAGCGCCCTACATTCCCGATGTGAGCAGCCCTTCGGACACGTCCAACTTCGATGTGGACGACGACATGCTGAGAAACATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021279-Cdc42bpb:NM_183016:7
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=0.096
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(24.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(16.5=53.0),PF0043319=Pkinase_C=PU(41.7=24.1)
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:
TCTCACCAGAGATCCTGCAGG
R:
TGTAGGGCGCTTCAAGGTTTC
Band lengths:
345-1552
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: