MmuINT0037430 @ mm9
Intron Retention
Gene
ENSMUSG00000032316 | Clk3
Description
CDC-like kinase 3 [Source:MGI Symbol;Acc:MGI:1098670]
Coordinates
chr9:57602309-57603175:-
Coord C1 exon
chr9:57603059-57603175
Coord A exon
chr9:57602476-57603058
Coord C2 exon
chr9:57602309-57602475
Length
583 bp
Sequences
Splice sites
5' ss Seq
GTTGTGAGT
5' ss Score
6.59
3' ss Seq
CACCTGTCCTTTTTCTCTAGCCT
3' ss Score
8.48
Exon sequences
Seq C1 exon
AGGGAAGTCACAGGTTGCCCTGAAGATCATCCGTAATGTGGGCAAGTATCGGGAAGCTGCTCGTCTAGAAATTAATGTTCTCAAGAAAATCAAGGAGAAAGACAAGGAAAATAAGTT
Seq A exon
GTGAGTATCTGCAAAGAGTGGACAGGTATCACTCAGTGGGTGGCATTCTCTAGTTCCAGCTGCCTAGTGTCCTCGAATTTGGTACTAGTCACACAGTACTCTTGGGGTTTGACAGTTGTTCTTTCTATAAAGAGCCCTTGGACTTCAGGCTCTACCCTGCCTGGCTTGTGTTCTGAAGTAGCCCAAGCCTTGCATTTATGAGTTAAGGGACTTAACAGGCTAGGGACACTTAAAGAAGACACCAGTGAACTTCTCTATAAGCACTTAACTGTGCTACAGTCAGCAGAGGGGCTGCACCTGCCCAGGTCCTCTAGAAGCTCAGCAGTACATGGAGGCCTGCGCTGTACTGGTGCAGTTGTATCTGCCTCTCAGTAACTGTGTCAGGGCTGCTTACCCTGGGTGCCATGGGTGAGCTGGGATCAGAATGTAGCCCCTCCACACAACATGTACAGTTCTTGCTAAGCACATGGGTGTGGTAGTGGATTGGCATGTGCTCTGGCTCCAAGGCTTGCTTTTTACCTTGGTAGAACAATTGGGGGTCAGGTGAGGCAGAGCTTGAATCTCACCTGTCCTTTTTCTCTAG
Seq C2 exon
CCTTTGTGTCCTGATGTCTGACTGGTTCAACTTCCATGGTCATATGTGCATCGCCTTTGAGCTCCTGGGCAAGAACACCTTTGAGTTCCTGAAGGAGAACAACTTCCAGCCTTACCCCCTACCACATGTCCGGCACATGGCCTACCAGCTCTGTCATGCCCTTAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032316-Clk3:NM_007713:6
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:
PF0006920=Pkinase=FE(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAAGTCACAGGTTGCCCT
R:
AAGGGCATGACAGAGCTGGTA
Band lengths:
279-862
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: