MmuINT0037414 @ mm9
Intron Retention
Gene
ENSMUSG00000068917 | Clk2
Description
CDC-like kinase 2 [Source:MGI Symbol;Acc:MGI:1098669]
Coordinates
chr3:88979567-88981009:+
Coord C1 exon
chr3:88979567-88979657
Coord A exon
chr3:88979658-88980315
Coord C2 exon
chr3:88980316-88981009
Length
658 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TTCTTCCTGCCCTCCACCAGCGG
3' ss Score
7.43
Exon sequences
Seq C1 exon
AAAACAGAAATATTTTTATCGGGGTCGCCTGGATTGGGATGAGAACACCTCAGCCGGGCGCTACGTTCGTGAGAACTGCAAACCTCTGCGG
Seq A exon
GTGAGCCTGGCCAGGGAGAAGTACTGTCCACCATCTAAAGGTTGCTTCTTTCTTCGGGTGGTTGGTCCCTGGAGTGCATTTTCTAAGTGGAGGTTAGGGCAGGAGGGGGAGGAACATTGAAAGAAGATAATTTGGTCAACGGTGGACAGAGGAGATCGAGGGTTCACAGATAACCTCATCTATAGACAACCAGAGGAAAGCAGACAGAAAAGAATAAACTACCTTTGAAAAGCTTACACTTTACACTTTAATGTGGAGCTAAGGAAGAGTCATGAGGTTGACAAGTATATACAAGTAAAACAGAATATTAAGGATTAATTGTGCTAGTGGGAAGGTAGGTTGAGCTGTAATATCAGAAATATTATGACCACATAATGTTGTGATAAGGTAGCTTTCAAATTCCATGCAAGCCGAACTTTGGTTCTTTTTCTAAAGAGCAAAAGTGGGGCTTTAGAGGAAGCAGGGAGTCGTAGGTGACACAGGCCTGCAATCCCAGCACTCGAGAGGCTCTTGTGAGGCCGAGGCAGGTGTTCCAAGTCAGCTGCAGTGCGTAGCTCCAGAACAGCCTCGACTGCACAGTGAGACCCTGTCTTGAAAAGGAAAGAAAGAGAATGAAGTTTGTAAGGCATTGCCTTACCTTCTTCCTGCCCTCCACCAG
Seq C2 exon
CGGTATCTGACCTCAGAGGCAGAGGACCACCACCAGCTCTTCGATCTGATTGAAAATATGCTAGAGTATGAGCCTGCTAAGCGGCTGACCTTAGGTGAAGCCCTTCAGCATCCTTTCTTCGCCTGCCTTCGGACTGAGCCACCCAACACCAAGTTGTGGGACTCCAGTCGGGATATCAGTCGGTGACAATTAGGCTTTGGGCCCCCTGCTCCTTGTGTAGCAGTGGGTGTCCAATCCAGGACACTGGTGCTTTTTTATACAAAAGAACAGAGGCAGAACTTGCCCTCTCTCCAGCCCCTGGCTCCTTTGTACCTGTGAATATGTGGAATAGTGTAAATATGACAGAACTTGTACCTATCGATTCAACCCCTGACATGTATATACTACTATTTACACTCTCCCAACCTCATCTGCCCCTCATGTGGAGGTGGATGGGGGGCAGAATGACGTAACCAGGTGGTGTCTACCCCATGTTTTATAAGGGATTTTGTACAGTCTTTGTGAAATAAAATGACATGCTTCATCTGACCCCCCCCAATCCCTGGAATTTGAGGTTCGAGGGTACTGGGGTGAAGGAGTGAAATAATTGGTAGCCATCTGAATTTGGGTATAAAGGCCTCTTTGTCCTGCCAACTTAGAGTCACTTATATGCACTTTGTATTCTGAGGTAGTAAAAATTAAAGTAGATGCAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068917-Clk2:NM_007712:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(12.3=62.9)
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:
TCGTGAGAACTGCAAACCTCTG
R:
CACAGGTACAAAGGAGCCAGG
Band lengths:
342-1000
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: