MmuINT0032912 @ mm9
Intron Retention
Gene
ENSMUSG00000024769 | Cdc42bpg
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:MGI Symbol;Acc:MGI:2652845]
Coordinates
chr19:6316519-6316934:+
Coord C1 exon
chr19:6316519-6316578
Coord A exon
chr19:6316579-6316828
Coord C2 exon
chr19:6316829-6316934
Length
250 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
CAGTGTGTACTCCTTCACAGCCC
3' ss Score
6.68
Exon sequences
Seq C1 exon
AGTGTGTTCCCCAGGGTGCCCGCAGCCACCACCACCCCTGCCGAAGGTCCTCCTGCTAAG
Seq A exon
GTCAGTGGCCAGAGGGGCAGGACAGCGGGATAGCGAGCCATTCAGCCCGTCCCCAGAACCCCTCTGGGACACTGGGACCCTACCAGGCCATGTTTAGCTGGTGCTGGTGCTGGTTTTCTGCCGTGACCTCTCAGATACTCAGAGTTGACACTGCGGACTGGCTCAGCCTCTTGGCCACCTGACCCTTTGAGATGGTGCACAGGGTACTGGGGGGCGCTGGGGCATGTTGACAGTGTGTACTCCTTCACAG
Seq C2 exon
CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024769-Cdc42bpg:NM_001033342:23
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=0.278
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(62.7=88.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGTGTTCCCCAGGGTGC
R:
GTCACAGCCCAGGCCCTG
Band lengths:
165-415
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: