MmuINT0037405 @ mm9
Intron Retention
Gene
ENSMUSG00000026034 | Clk1
Description
CDC-like kinase 1 [Source:MGI Symbol;Acc:MGI:107403]
Coordinates
chr1:58474111-58476577:-
Coord C1 exon
chr1:58476511-58476577
Coord A exon
chr1:58474228-58476510
Coord C2 exon
chr1:58474111-58474227
Length
2283 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
ACTTTTATTTTCTTTAACAGGGG
3' ss Score
11.14
Exon sequences
Seq C1 exon
ATGAAATTGTTGATACTTTAGGTGAAGGTGCTTTCGGAAAAGTGGTGGAATGCATCGATCATAAAGT
Seq A exon
GTAAGTTTCCCTATTTTTTTCTTTTTTTGGTTTTTCAAAACAGTTTATTTGTGTAACATCCCTGCTTGTCTTGGAACTCACTTTGTAGACCGACCAGCCTGGCCTAGTGCTCAGATTGACCTGCCTCTGCTTCTAGAATGCTTTGGAATGTTTTTGAGACAGCGTCTAACTTTGCAGGCCTGGAGCTCTCACAGAGATCTACTTGCCTCTTTGAGTGTTGGGATCAAAGGTGTACAACATCGAACCTGGCCTCTTGGTTTTTTGTTTGTTTGTTTGGTTTTGGTTTTTTGAGACAGGGTTTCTCTGTGTAGCCGTGGCTGTCCTGGAACTCACTCTGTAGATCAGGCTGGCTTCACTCTTGTATTTTTTTAAACAAAACCAACTAAATAGTATTTGCAGCTTCCTGGCTGGAGAAGGGACAGAGAGTTTTAATTCCTAGCACCAATGAGTATGAGACTTGTTTTTTCTTTTTTCTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCTCTGGCTGTCCTGGAACTCAATTTGTAGACCAGGCTGGCCTCGAACTCAGAAATTCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCATCACGCCCGGCTGTTTTTCATTAGATGAATTGTCATGACAGAGCTGGGTGTCATAGGTGTGATTATTCGGGTCCATCAAGCTTCATTAGTGCTTTTCACACCACTCAACCCATGTTGGTGATCAGACCTAGGGATTCAACATGCTAATGACAGTGATTTTTATTTCTAATTGTGTGTGCACTCATGCATAGGAGTACAGAGGCCAGAAGAATGTGTCCAGGATGCAGGTGGTTGTGAGTTGGGCTGCCTGGTGCAGATACTGGGAGTTGAATTCTGGACTTCTGTAAGACCAGTACATGGCTGTTTTTGTGTTTTCTCTGTATCTTTATTTTTTATACTTTGGAATAAATGAAACTTTTTTGAGGGACTTGCTGGGGACCTGCCAGTAGTCTACTAAGGGCATGAAAACTTTTAATACAGTTTAAAGCTTAGGCCTTTAGCAGAGGCAGTCTCCCAGCTGCTCTTTACTTTGTTTCTTCTGGTTTTTCCAGACAGGGTTTCTCTGTAGCCCTGGCTGTCCTGGAACTCAATTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCTCCTGCCTCTGCCTGTCAAGTGCTGGTATTAAAGGCATGTGCCACCACTGCCAGGCTCAGCTGCTCTTTACTTAACCTGACTATTCTAGCACTTGTCCTGCCAGCAGGCTATCTGTTTACCTACCTATTCTGTTCCCTTCAGTGTCCTTTACAATTCTGCTTTTGAGTCTCAAACCTCTCTGGCTGCTCTGCCTTGGTACTTCTTGCCCTAGCTATTGGCAGTCAGTTCTTTATTACAGTTAGCAGGGAGACAGCACGTGATACATCTCTTAGATTGGTGATACATCTCTTAGATTGCCTTTAGGCAGGTAAGGAAGGACAAAGGTTACAAATTGAAAACCCAGTGATGAGAAAACCTGGTGATGAGCCATAGAGATGACAGTACCAAAATTCTGCCAGCATTGAGCTCTGTGCCAGTACAGAATTAACAGTTGAAAATACAAACACCTTAATACTATAAATACTTGTATGTGTTTAGTTCTGGGAAAAGTCCATGGGACCTTGTTCATCTAAAGCAACCACTTTGATCAGCTATACATTTTCTGCCCCAAGAGTAGCAAAAACTTTCTAAATGAGTTGAGTTGAGACCTAGCACCAACTTTTCTGATAACCTGGAACAAAGATTTGAGATAGTATTTGACACAGTGGTGGGCAATATAGGAAACAAACTGCATTTGTTTTGAGTCTTAGAAAACAGGTTGAGGGGTTGGAGAGATGGCTCAAGTGGTTAAGAGAACGGACTGCTCCTGAGTTCAAATTCCAACAACCACATGGTGGTTCACACCATCTGTAATGAGATCTGACGCCCTCTTTTGGTACTTAGATATAATAATAAATCTTTTTTAAAAAAAGAAGACAGATTGAGATAGTGTTTTTTTTTTTTTTTTGGGTTTTTTTTTTTTTTTGGTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTATCCTGGAGCTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCCACCTCCCTAGTGCTGAGATTAAAGGTGTGCACCACCACTGCCTGGCATCTATCACCTTTTAAAACTTACTTTTATTTTCTTTAACAG
Seq C2 exon
GGGAGGTAGACGTGTAGCAGTAAAAATAGTTAAAAATGTGGATAGATACTGTGAAGCTGCTCAATCGGAAATACAAGTTTTGGAACACTTGAATACAACAGACCCCCATAGTACTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026034-Clk1:NM_001042634:5
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=0.025
Domain overlap (PFAM):
C1:
PF105774=UPF0560=FE(12.4=100),PF0006920=Pkinase=PU(6.9=95.7)
A:
NA
C2:
PF105774=UPF0560=PD(1.1=5.0),PF0006920=Pkinase=FE(12.3=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:
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: