MmuINT0032906 @ mm10
Intron Retention
Gene
ENSMUSG00000024769 | Cdc42bpg
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:MGI Symbol;Acc:MGI:2652845]
Coordinates
chr19:6315172-6315787:+
Coord C1 exon
chr19:6315172-6315286
Coord A exon
chr19:6315287-6315638
Coord C2 exon
chr19:6315639-6315787
Length
352 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
GTACCCTCGGTTGCTCCCAGGAT
3' ss Score
6.26
Exon sequences
Seq C1 exon
GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG
Seq A exon
GTGAGCCCCATGCACATGAGCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGCGGTCAAAAGGCAGCTTACAGGGAGTCACTTCTCTCCTTCTACCATGTGGGTTCCCAGAGATTGACCTCAAGTTGCCAGGTTTGGCAGCATACCTCTATCTTCTGAGCCATCTTGTCATCCCCCAAGGCTCCAGGTTTATGCTGAGGGGTGAGGAGAGTTGGGTCTTTGAGTCTGGCCAGGCAGCATGCGAGGCATGTTTTAGTGGGAAGCAAGGAGGAAGGGAGGGAGTCTCTGAAGCTGTCAGTCGCAGAGAGCATCTTACAGGGTACCCTCGGTTGCTCCCAG
Seq C2 exon
GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCTCAGCGGCAGGCTGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024769:ENSMUST00000025681:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.410 A=NA C2=0.580
Domain overlap (PFAM):
C1:
PF070286=DUF1319=PU(18.3=51.3)
A:
NA
C2:
PF070286=DUF1319=FE(45.0=100),PF088265=DMPK_coil=PU(52.5=62.0)
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:
GGTGAATGACGAGAAGGTCTCA
R:
CTGCCGCTGAGCCTCCTG
Band lengths:
256-608
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