MmuINT0037435 @ mm10
Intron Retention
Gene
ENSMUSG00000020385 | Clk4
Description
CDC like kinase 4 [Source:MGI Symbol;Acc:MGI:1098551]
Coordinates
chr11:51277853-51280437:+
Coord C1 exon
chr11:51277853-51277935
Coord A exon
chr11:51277936-51280357
Coord C2 exon
chr11:51280358-51280437
Length
2422 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTTTCCTGAATGTTTTTTAGACC
3' ss Score
8.75
Exon sequences
Seq C1 exon
CTCTAGGTTGGTCTCAGCCTTGTGATGTTTGGAGCATAGGCTGCATTCTTATTGAGTACTACCTTGGGTTCACAGTCTTTCAG
Seq A exon
GTATGTATCTAATACATTTTATTTGATGATCTTTAATGAATTTTATGTTAAACATGCTGTAGTTAGCATTCATATTGAATATTTGCCATAGAATAATCATTGAAATTAACACATAAATATCATACTTCTAAAACCACAGTTGATTGAATTTCTACTACTAGTGAGGTTGTAACTTGTTTCAAATGTGTATGATATCTTTTAACGTAGAGCTCATGTAGAGTTCATATTATGTGTCCTAGTTTATTTTTTGTTTTTGTTTTTTTTAATTAAACTTCATAAATTTATATTGTTTAGTATGGCTAGTTACAGTTCTGCTCTGGGTATGTTAACCTTGTTTCTAAAAACATATACTAATAAAGCATAAAAATGTGGGACAGTCTAGGCATGGTGACACATGCTGATAATTCTATCACTCAGGCTGAAACAGGTGGATCGAGATTGTGAGCCTCAACTATATAGTGAAATTAAGGCTGGTCTTGGCTACAAAGGGAGTCTTTCTCACAAAGCAAACTCTGCTCTCTAGAACAGAGATTGGCAAATGGTGTGCTCTTGTGGAAGTCCTCCCTGTTGACTATTAAAGAGAAAGGGTCTTTTGCCAGCGGTTCACGCTAAAAGGTTTTTGGCCTGGCCCTTCCTTCAGAGAAAAGTTGGCCAGCTTCACTCTAGAGCCACCATCTCACCTGTGTGTACAGCCGCTGCTTTTCCAGCTTAGCATGCCCCAGCTCTGTGCTGCACTAGTTTTATTTTTTTTTTTAATTAGGTATTTTCCTCGTTTACATTTTCAATGCTATCCCAAAAGTCCCCCATACCCACCCCCCCAATCCCGTACCCACCCACTCCCCCTTTTTGGCCCTGGCATTCCCCTGTACTGGGGCATATAAAGTTTGCAAGTCCAATGGGCCTCTCTTTGCAGTGATGGCCGACTAGGCCATCTTTTGATACATATTCAGCTAGAGTCAAGAGCTCCGGGGTACTGGTTAGTTCATATTGTTGTTCCTCCTATAGGGTTGCAGATCCCTTTAGCTCCTTGGGTACTTTCTCTAGCTCCTCCATTGGGGGCCCTGTGATCCATCCAATAGCTGACTGTGATCATCCACTTCTGTGTTTGCTAGGCCCCGGCATAGTCTCACAAGAGACAGCTATATCTGGGTCCTTTCAGTAAAATCTTGCTAGTGTATGCAATGGTTGCACTAGTTTTAAGAGTAAGGTGGGGGCTGGAGAGATGGCTCAGCAGTTAAGAGTACTGACTGCTCTTCCAAAACTCATGAGTTCAAATCCCATCAACCACTGGTGGCTCACAGCCGTCTGTAATGAGATCTGATGCCCTCTTCTTGTGTGCCTGAAGACAGCTACAGTGTACTTATATATAATAAATAAATAGACCTAAAAAGAGAAACAAATTTAAAAAGAAAAAAAAGAGTAAGGTCCTTGACTTGGGTGTGTTGTCAGCTTTACTTATTTGTGAGCTATGTGTCTTAATCTCCTTAAAGTCATATTTCTAAACAAAGCTCAGAACTGTGGTGGGAATTGTTGGGCTGGCTATATTACCTGGTGTCTTAGTCAGGGTTTCTATTCCTGCACAAAAGCATGACCAAGAAGCAAGATGGGGAGGAAAGGATTTATTTGGCTTACACTTCCATACTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGGAAGCAGGAGCTGATGCAGAGGCCATGGAGGGATGTTCTTTACTGGCTTGCCTCCCCTGGCTTGCTCAGCCTGCTCTCTTATAAAACCCAAGACTACCAGCCCAGAGATGGTCCCACCCACAAGGGGCCTTTCCCCCTTGATCACTAATGGAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCTCAACTGAAGCTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAGCCAGTACACCTGGGATTAATGTTAGTAAGTTAGAGATCTAGTTAAATAAATAGTTCATGAAATAGAAATTGTTTTATTTTATGTTAGATACTTCTCATGTTGATTACCATATAGACCTCCCTAGTTTATCTTAGACTGTATAGTGTTTGCACCAGACAAAACAGCTCTTTCAATGTCGTTCATCTTTGAGGAATTTATTATGTAAATTGTGTAGCTGGCTAGTCTGGTCTTTTTGTTGTTATTAATGGTGTTTATTTATTGGGGGTGGGTGCACACATGTGGAAGACAACTTGTAGAAATTGGTTCTTTCACCATGGAGTCCCAGATTAGATTGCTGATCTTTGCAGCAAGGGCCTTTTACCCATTGAGCCATCTCTATCCTTAGTCTAGTCTTTTTATATCAGCCCATATTTTATTTTATTTTTTATGTGCATGTAAGGAAGGTAAAGAATGCTAAATTCCTTTTTCCTGAATGTTTTTTAG
Seq C2 exon
ACCCACGATAGTAAAGAGCACCTGGCAATGATGGAGCGGATCTTAGGACCCATCCCAGCACATATGATCCAGAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020385:ENSMUST00000093132:10
Average complexity
IR
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(8.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.2=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:
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types