MmuINT0037440 @ mm9
Intron Retention
Gene
ENSMUSG00000020385 | Clk4
Description
CDC like kinase 4 [Source:MGI Symbol;Acc:MGI:1098551]
Coordinates
chr11:51086580-51087128:+
Coord C1 exon
chr11:51086580-51086670
Coord A exon
chr11:51086671-51087061
Coord C2 exon
chr11:51087062-51087128
Length
391 bp
Sequences
Splice sites
5' ss Seq
GATGTATAG
5' ss Score
-2.49
3' ss Seq
CTTTCTCTCCCTTACTTTAGATG
3' ss Score
11.05
Exon sequences
Seq C1 exon
AAGAGCCACCGAAGGAAAAGATCCAGGAGTATAGAGGATGATGAGGAGGGTCACCTGATCTGTCAAAGTGGAGACGTTCTAAGAGCAAGAT
Seq A exon
GTATAGAATATTTTTCAACACTTTTTAAACTTTGCAGACAGAATAATCTTTTAAAGAATAGTTTGTCAGCGGGGGGCTAAAGACTCTCATTGCTTTTTTGTTTTGTTTTTTGTGGGTTTGTTTGTTCTTTTGTATTTCTTCTTTTCTGTAGAATTTAAATATTTCTATTCTTAAAATTCCAAAGTAATCAGTGGCGTTTGAGACTAGAGCAGGACAGACAGCTCTATCTAACTGCTTGTAGCAGCTGAAATACAGTAACTTGAGCGATGAAACCTTAGTTATGCTTTGCTAAAGATCATTTGGAAATATGCCACACTTAAGCATTCATTGTTTGAACAACTCGGTAATTGTGCTTAGGTACTTAGACCTCTCTTTCTCTCCCTTACTTTAG
Seq C2 exon
ATGAAATCGTGGACACTTTAGGTGAAGGAGCCTTTGGCAAAGTTGTAGAGTGCATTGATCACGGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020385-Clk4:NM_007714:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.1=0.0)
A:
NA
C2:
PF0006920=Pkinase=PU(6.9=95.7)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: