MmuINT0037407 @ mm10
Intron Retention
Gene
ENSMUSG00000026034 | Clk1
Description
CDC-like kinase 1 [Source:MGI Symbol;Acc:MGI:107403]
Coordinates
chr1:58414590-58417179:-
Coord C1 exon
chr1:58417013-58417179
Coord A exon
chr1:58414685-58417012
Coord C2 exon
chr1:58414590-58414684
Length
2328 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
ATTATGTGTACTTTCTCCAGTTT
3' ss Score
6.16
Exon sequences
Seq C1 exon
CCGTTGTGTCCAGATGTTGGAGTGGTTTGAGCATCGAGGTCACATTTGCATTGTGTTTGAACTTCTGGGGCTTAGTACTTATGATTTCATTAAGGAAAACAGTTTTCTGCCGTTTCGAATGGATCATATCAGGAAGATGGCATATCAAATATGCAAATCTGTAAACT
Seq A exon
GTAAGTTCTTGATATTTCTTGTAAAATTTGAGTTTGAGACTAATGTCAGACTAATTTGGATCTTTAAAAAAAAGAATCTGGTGGGACTCTAGGGACTCTAGCTCAGTGACAGAAATGAGGCCTTTTTGTTCTGTCCCCATGACTACAGAAGACTAGAAGATGAGATCTACTGTGGGATTTAAAAGCCTAGCCTGAGAGTATATACAGACTAATTGGGGGATTGGATGCTGATTAAGTTAGCAAGCTTGTTAAGAGTGGTTTAAAAGGTCAGGGGATGGTAGACACCTTTAACTCCCCAGCATTTCCAAGGCAGAGGCAGGCGGATCTCTGAGTTCAAGGCTAGCAGGTGCCATAAAACCCTTTTGAAGAAGAAGAAAAAAAAAAGATTTGAATATACCTCTTAATAGCTATAGTTGACAATAGGGGTGGGAGGAAGACTTAATCGCACATCCTTGGGTTCAATCTCCAGAGAAGAGAAATTATTGTAAAGTAATATTTAGTTGCTTACAAGTTGCTGGTCTGTAGTATTTAATTCAGTGAACAGAAAGCTAGACTTGTGGGCTGGAGACATCTCTTAGCGGTTAAGAGCACTGACTGCTCTTCCAGAGGCCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGCAGCCCAATGTGTCTAAAATACAGCTACAGTGTACTACTCATATATAAAATAAATAGTTTTTTTAAAAAACAGGAAGAAAGCTGGGAGTGTGGTTAAGTGGGTGTTGGCTCAGCATGTGCAGAGCCTGGGTTGGATCTCCAGCAACGTGTAAGTTGGGCATGTTGATGCATGCCTCTAATTTTTAGCCCTAGCAGATGGCAAAAACAATAACAAAAAAAAACCAAAAGCAAACAGAATTTCTAAAAAAAAGATTCATTTACTTAATGTATGAGTATTCTATCTGCATGTAAACCTGTGTGCCAGAGAGAGCATCAGATCCTACTATAGATGGTTGTGAATCACCATGTGTTTGCTGAGAATTAAACTCAAGACCAGAAGAGCGACCATCTTAACTGTTGAGTCATCTCTCCAGCCCCAAAAGATCAGAATTTTCAAGTAGTTTTTTAATCTAAGTTTGAGGCCATCTTTTTATCTCAAAACAAAAGGTAAAAGGTGTATGCATAAGACTGATTTAGCCTAGAGTCCTAAAAAAATTTAAATGCAACAAATCTCAGTTTGGTTTTTGTGGTGTTTTTTTTGTTTTTTTTTTTTTTTTCTTTTAAAGATTTATTTATTTTATTCATATGAGTACACTGTAGCCTTCTTCAGTTACACCAGAAGAGGGCGTCTGATCCCATTACAGATGGTTGTGAGCTACCATGTGGTTGCTGGGCCTCCTACCCCCAAACAAGATATGTAAACCAGAAATACCCTGTTGTCATTGTCTTAATTGGCAACCCTCTGAGTTTTTTTCTTTTAAGTACTGGGATTACTGATGGAAGCCAATATTTTCAGTTCCTTTCTTGTTACTGAGAAACATAGTCTCATTGTGCAGTCTAGGGCAACCTTGTACTCTGTCCTAGTTCTAAGATTGTAGTGCTACTAACTACACCCAGCATCACTAGAGTTGGCAATGTTAGTGTTTCAGTCCTCAATGATTTGAGACAATCTGATTGTCTCAGGATAGCTTCAGATCTCAGTATCCTGCCCTAGTAGCTATCTACCACCTGAATGTTGTGGATAGAACCTTGTATGGATGGAAAGCATTTATTATCAGACATAGATCCTCACACCTTCTCTGGTGAATTCGTTACTGGACTAAGATTTTTGATTACTTTCTACATTATATAAGAAGACACCAAAGGAGGTTTTTGTTTTGTTTTGTTTTTTGTTTTTTTCCTTGTGTTTAATTTTGTTATTTTCATGTGTGCACAACATGATTGTAGGGTTTCAGACCCCCCTGGCATTGAGATTTCAGTTGGTTATGCCACTTAATATGGGTGCTGGAACTTGAACCCAGGTCTTTGAATAATAGTAGTCCATGTCCATGCCACTGAGCAATCTGACCAGACCATCTTGTTGGTTCTGACAATCTCAGCCAGGCCGGGTGGTGAACATCTTTACTCACAGCCAGGCCAGACTGTTCCACAGGGGAAGTATTAGGAAAGCCCAGGGCTAGAGAGACCCTTTCACAAAGAGGACTCATTCAGTACCCTACCTAGGCTAGTCTTAGACTTAGATTTTCATGTGTCAGCTTTTTTACTGCTTTGATTATAGGCACATGTTACAATTTAGGGCTTATGATTTTGTTTTGATATTTGAGACTGATTATGTGTACTTTCTCCAG
Seq C2 exon
TTTTGCATAGTAATAAATTGACTCATACAGACTTGAAGCCTGAAAACATCTTATTTGTGAAGTCTGACTACACAGAGGCTTATAATCCCAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026034:ENSMUST00000034868:7
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(17.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.8=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