MmuINT0032843 @ mm9
Intron Retention
Gene
ENSMUSG00000026490 | Cdc42bpa
Description
CDC42 binding protein kinase alpha [Source:MGI Symbol;Acc:MGI:2441841]
Coordinates
chr1:182068563-182069935:+
Coord C1 exon
chr1:182068563-182068702
Coord A exon
chr1:182068703-182069853
Coord C2 exon
chr1:182069854-182069935
Length
1151 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
ATGTTTAACTTTTATTTCAGAGA
3' ss Score
7.77
Exon sequences
Seq C1 exon
ATCCCTAAGCCGGCGGGAGTGAAGAAAGGGTGGCAGAGAGCACTGGCTGTGGTCTGCGACTTCAAACTGTTTCTTTATGATATCGCAGAGGGAAAAGCATCGCAGCCCACCTCCGTCATTAGTCAAGTGATTGACATGAG
Seq A exon
GTAAGGGCGAGGAATAAAGACAGATCTGTCACAGCAGCGTAGATCAAGGTTTATGGTCTTTCTTCTAGGTTACTATGTTTTGGTAAAATAATTTTGTGTCAGTTTTCAGGTTTAGCCCTACAGCTACATACTAGAAAGTTAAGGGTGGTTCTAGGGCAAGTTGGTTTGTGTCTTGAGTATGTGGAGTCAAAGTTGACATCTAAAAGACCAGTTATGTAGTAAAAGAGTCCTAATTATGCGCTGTTCAAGTCATCGTCTGAAACTGCAAAGTGACTGAGTGTAAGTGAAGGGGTAACTCTCCCACGGCCCCTGGACAACGCACTAAAGCAGCCAACACCTGAGAGTCTGTCTCCCTAGCACCACTGTCCAGACTCTTCGTGTGCCCTCAACACCTCCCTCCTTTCCTAGAACCTCGGGCATTGTCCTGGGGGTGGTTATTTTCTCCCACAGCTTCAGGCATTGCTTCTGAATGGTGGGTCCCACTTGTCTCCTATTCAGGCACAGCCATTGCTAAAAATGCACATTCCCCCTATGCCTAGTATCTGAAGCACAGTGAAATACACAGGGAATATCAGCAAGGGCGATGTGGCAGACCTGAAAAGTGAGGAGCTAGCGCTAGCAAAGGGCCATTCCTCAGCCCACATGGTCACGGATAGCCTGGACAACAGCAAGACTGTCTGTTACAAGGAATGCAAGACGGAGTCAAGACTTAAAGGCAGAGGGAGTAGGGGACTCATGACTCATCGCAGGAGCAAGGAGTAAGCCACTCCTCACAGTCAGGGGAGCAGACACAGCACACATGAGACTCATTATGGCAGGCAGGAGAGTCATTAGGAATTCTGGAGGCTAACAAAAGCTGCTTCTGGCTGTGTGCTTCCTGGTCTTGTGTACCTTTGTGGGTCACTGTTATGTCTGGTGTAATGCACCACTGCCAGGTCACTCCTGATGAATTACCTTGAGTACTGTTAGTCATTATGTAGGGGAGTCTTGTACTTTGTTTTTTTGTTGTTGTTGTTTTGCTTTAAATTGAGCTTGGGTGTTTATACAGTTAAGCTTTGAGGATTGCTTTGTATATGTTATTTGGGTATATAAGCAAAACCATACACACACAGCAACATGTAACAACCTTAAATGTTTAACTTTTATTTCAG
Seq C2 exon
AGATGAAGAATTTTCTGTGAGTTCAGTCTTAGCTTCTGATGTTATTCACGCAAGTCGAAAAGATATCCCCTGTATATTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026490-Cdc42bpa:NM_001033285:26
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCCTAAGCCGGCGGGA
R:
TACAGGGGATATCTTTTCGACTTGC
Band lengths:
214-1365
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: