GgaINT0030405 @ galGal4
Intron Retention
Gene
ENSGALG00000001362 | CLK3
Description
dual specificity protein kinase CLK3 [Source:RefSeq peptide;Acc:NP_001012542]
Coordinates
chr10:1977227-1978128:-
Coord C1 exon
chr10:1978062-1978128
Coord A exon
chr10:1977344-1978061
Coord C2 exon
chr10:1977227-1977343
Length
718 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTTTGTCTCTTCTCTTACAGAGG
3' ss Score
11.29
Exon sequences
Seq C1 exon
ATGAAATTGTCGGCAGCCTTGGCGAAGGCACTTTTGGCAAAGTGGTGGAGTGTGTAGACCACGCCAG
Seq A exon
GTAGGTGGCTTTCGCTTCCAAACACCTTGTCTATCCGTCGTGCTGCAAACCCAGACGCTGGTGAGGGTGGCAAGATTTATGCTGCCACTGTAATGCACTGTTCAGCAGCTGAGAGCTTCAGCACAGGACTGCTCTACTGCCCTACTGTAAAGGCAGGGAACTCCAGGGCCGGGCTAGCCAGATGGGAAAGCGGCCTCTTAATCTGCCAGGGCGCTTCTTTTTTCGTCCTCTCCTGTGATTACATTTGACCCTGATCTCTTCCCAACCTTTCATCTGGCTCTGAGCCCCAGGGTCAGCTTAGCACAGGAGCTGCTGGGATCTCCTGCCTCCTCAGAACTCCCTGGCACAGTTGCAGAGAGGAGGCGTCTGCTGGAGCGGCTGTGACCTTAGGGACTGCTGGGTCAGGACGTGGTGTATTTGCAGAGCTCGCTGCAGCTCTCTTTCGGATGTTACTTGAGCCTTTCACTTCACATTTCTGCGGGTATCTGAGCACTCGTCAAGGTTGGGGCAAGGACAGAACATCTAATCTCTTAGCCAGCGATCTGGCTGGTTTTTGTGCGCTATCACTTACTCATCCCAAGCTTGCTAAAGGCTGTCTCCTTCCCGTGCCTGTTTGTATTTCTTAGTATGGCCCTAAAGGCTGCTGCAGGGCCCTGTGGAACACGTATAACAGGCAATAACAGCTTTTGCTCTGACTTCTTTGTCTCTTCTCTTACAG
Seq C2 exon
AGGCAAATCGCAGGTGGCACTGAAAATCATAAAAAACGTTGGGAAGTACCGCGAGGCAGCCAGGCTGGAAATTAATGTCCTGAAGAAAATCAAAGAGAAGGACAAGGAGAACAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001362:ENSGALT00000002079:4
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=PU(6.9=95.7)
A:
NA
C2:
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:
TGAAATTGTCGGCAGCCTTGG
R:
ATTTGTTCTCCTTGTCCTTCTCT
Band lengths:
182-900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]