MmuINT0032920 @ mm9
Intron Retention
Gene
ENSMUSG00000024769 | Cdc42bpg
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:MGI Symbol;Acc:MGI:2652845]
Coordinates
chr19:6320243-6321754:+
Coord C1 exon
chr19:6320243-6320842
Coord A exon
chr19:6320843-6321656
Coord C2 exon
chr19:6321657-6321754
Length
814 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
AGGCTGTTTCCCACCTACAGGTT
3' ss Score
9.3
Exon sequences
Seq C1 exon
ACATCTTCCAGGTGGGAGACTGCCGCCGGGTGCAGCGGTTGGCTGTGAGCTCTGCGGCTGGCCTCCTGGCTGTGCTCTGTGGCCGTGGCCCCAGTGTGCGCCTCTTCGCCCTGGACGAACTGGAGAGTGCTGAGGTGGCGGGTGCCAAGATCCCGGAATCCCGAGGCTGTCAGGCTTTGGTCGCTGGGCGCATCTTGCAGGCCCGGACTCCAGTGCTCTGTGTGGCAGTCAAACGCCAAGTTCTCTGTTACCAGCTGGGCCCAGGACCAGGGCCCTGGCAGCGCCGCATCCGAGAGCTGCAAGCACCAGCTCCGGTGCAGAGCCTGGGCTTGCTGGGTGATCGGCTCTGTGTGGGCGCCGCAGGCACCTTCGCTCTCTACCCGCTGCTCAATGAGGCTGCACCCTTAGCGCTGGGAACTGGTCTGGTGGCCGAGGAGCTGCCTGCATCCCGTGGGGGCCTAGGTGAGGCACTGGGTGCCGTGGAGCTCAGCCTCAGCGAGCTCCTGCTGCTCTTCGCCACTGCCGGCGTCTACGTGGATAGTGCTGGCCGCAAGTCACGAAGCCACGAGCTGCTGTGGCCAGCTGCACCCACTGGCTGGG
Seq A exon
GTAAGGCTGGTAGAGGGCTTGGCAGGGTGGGGTCAGGCCCTGGGGGTCCTGTGACTATTTTGTGTCCTGAGTAGCTTGCCTAGGGCCTTCTTCACTCCATTCTCTACCTGGCCAACTTGAGTGGCAGCTCCAGCCGGGTAGTTAGCTGCTCTGTAACCGACAGTCGTATCCCTCCCTCTGCACCACTGCACTCTGACTCCTTCTCATGCCACCTCTTGGTTCAGACCTCTGTTCTGGGTCTCGTCATCCACGTCGTGACTGCGTTTATGCACTGGGACCTGTAGAACAGGCTAGGATTGGGTCCTTCAGCCAGCCAGCATGGGCAGGCACACCCTGGGGGCTAGGCTTGTTGGGGATGAACAAATGAATGGAGGAGAGGCATGGGCTGGTATGGTTACTTGTAGCCAATCTGATGGGCTGGAGGAAGGACAGGGGACAGTGTCCTTTCTGAGCAGAGGCTCGTCTGTGGTGTGGCCTGGGGTTACGTGTAACACAGACTGCCACTGGCCACGTCTCCTGTCCCTCCCCAGCTGTATGACCTTGACCACTGCTTTGCTAAGATTTCCATGACCTCATCTAATGTCCAAGATCAGGGTGATTATAGTACCTGCTCCTGCCTGGAGCGGCCGGAGAGTTAAGAGAGGACAAACATGACAAGCATTTGCAGCTGTGTGGGCATGTAGTGAGGGCTGGCTATTATCTCATCTGTTATGGAGTTGGGCGGGGCCGGCTCCCTGTGGGACAGAAGAAACAGGCTCAGAGAGGGACCTGGCTTGCCCGGGGCTACACACTACAGGCTGTTTCCCACCTACAG
Seq C2 exon
GTTACACAGCACCCTACCTAACAGTGTTCAGTGAAAACGCCCTTGATGTGTTTGACGTGAGGAGAGCAGAATGGGTACAGACTGTGCCGCTCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024769-Cdc42bpg:NM_001033342:30
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(74.9=100)
A:
NA
C2:
PF0078017=CNH=FE(12.0=100)
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:
CTGGGTGATCGGCTCTGTGT
R:
CGGCACAGTCTGTACCCATTC
Band lengths:
357-1171
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: