MmuINT0037409 @ mm10
Intron Retention
Gene
ENSMUSG00000026034 | Clk1
Description
CDC-like kinase 1 [Source:MGI Symbol;Acc:MGI:107403]
Coordinates
chr1:58413390-58414501:-
Coord C1 exon
chr1:58414372-58414501
Coord A exon
chr1:58413473-58414371
Coord C2 exon
chr1:58413390-58413472
Length
899 bp
Sequences
Splice sites
5' ss Seq
TAGGTTAGT
5' ss Score
5.5
3' ss Seq
CATTGTGCTTTGCTTTGCAGCCC
3' ss Score
9.92
Exon sequences
Seq C1 exon
AAACGTGATGAACGTACTATAGTAAATCCAGATATTAAAGTGGTGGACTTTGGAAGTGCAACATATGATGATGAACACCACAGCACATTGGTATCTACAAGACATTATAGAGCACCGGAAGTTATTTTAG
Seq A exon
GTTAGTACTTGGTATGCTGAAACAACCTACACTGCTATATTGAATCCAATAAAAATTTGTAGTTTGGGGTGTTATTTGTATGACTGCTTTATGGTTTTTTCAAGGCAGGGTATCTCTATGTAGCCCTGGCTGTCCTGGAACTCACTCTGTGGACCAGGCTGGCCTTGAACTCAGAAATCTGCCTGCTTCTGCCTCCCAAGTGTTGGGATTAAAGGTGTGTGCCGCCACCGCCTGGCTTATATGACTGTTCTGTTGATCATTTTCTCCTTAAATAATACTCCAGACTAAGGAATGTAGCTCAGTGGTACAGCTCTTGCCTAAGCTTTTATCATGAAAAAAAGAAAATAGACAACAGTATTAGAAATTATGTTGAGAATCTTCAAATTGCTGGGCATGGTGGCACATGTCTTTAATTAGAGGTTGGTAGATTCTTTGAGTTAGAAGCCAGCCTGAGCCACATAGTGAGATCCTGTTCCAAAAACAGATGGTTGATATCTCAACTAATCAGCTGTGAAACTAGCAAGTGATGCTTAGCCTTAAAAATGAGATTGTTTTTGAGAAATGTGTTGTTGAGTGGGCATTTTGTAATCTTAGTCAACTCCAGGTATGTTGTCTGCTCAATACTAACCCGACCTACACATGCAGAATCGGACGTGAAAAGAGTGTACTTTAAAGAAAGAACAAATTGTATTGGCTACCATGCATCTAAGTATGGCAGAGAGACGATATGGTGTAATCCAGTAGTGCTCTTGGTGTGGTGAAGAAAATGAAAATGCAAGATTAATCAAGCACCTTGCACACTGTGCTCAGGGCATTTCAGTAAATTCAGAACATGGTGGGCTGTCCTAGCCTAACTCGCTCTGAGGATTTCTACACTGACATTGTGCTTTGCTTTGCAG
Seq C2 exon
CCCTCGGGTGGTCACAGCCATGTGATGTCTGGAGCATAGGATGTATTCTTATCGAGTATTATCTTGGATTTACAGTTTTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026034:ENSMUST00000034868:9
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(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=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
- 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