MmuINT0032913 @ mm10
Intron Retention
Gene
ENSMUSG00000024769 | Cdc42bpg
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:MGI Symbol;Acc:MGI:2652845]
Coordinates
chr19:6316829-6317294:+
Coord C1 exon
chr19:6316829-6316934
Coord A exon
chr19:6316935-6317160
Coord C2 exon
chr19:6317161-6317294
Length
226 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
AATTCTCCATCTCTCCACAGCCT
3' ss Score
9.43
Exon sequences
Seq C1 exon
CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA
Seq A exon
GTAAGAACATTTGTCCTTCAGGCTCTCCCGTCACACCGTAACATACCCAGGCTCTTCTCAACCCGACAGCACTCACGTCTCTTATCAAGCTCTCCAACTTAGTTACTCCTATCTCACTCGATGGCAACGGGTGACAGTTCAGGTGGCGTTAGCCCCAAGGGAGCTGTCTGGGAAGGCTCACTGCCTGACGGGCTTTATCCCTCCCAAATTCTCCATCTCTCCACAG
Seq C2 exon
CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024769:ENSMUST00000025681:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PU(62.7=88.9)
A:
NA
C2:
PF0013017=C1_1=PD(35.3=40.0),PF0016924=PH=PU(5.9=15.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GCTCACACACCCTGCGTC
R:
CGACAGGAAGCCCTCATAGG
Band lengths:
236-462
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