GgaINT1009618 @ galGal4
Intron Retention
Gene
ENSGALG00000014632 | CLK2
Description
dual specificity protein kinase CLK2 [Source:RefSeq peptide;Acc:NP_001026497]
Coordinates
JH375217.1:7877-9894:-
Coord C1 exon
JH375217.1:9660-9894
Coord A exon
JH375217.1:7971-9659
Coord C2 exon
JH375217.1:7877-7970
Length
1689 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CTGTCTGCCTGGGCCAGCAGCGG
3' ss Score
2.96
Exon sequences
Seq C1 exon
CTACGACGACCACTCAGCAGACAGGAGGGCCTACGACCGCCGTTACTGTGACAGCTACCGGCGCAACGATTACAGCCGTGAGCGAGGAGAGCCCTACTACGACCCCGAGTACCGGCATTCCTACGAGTACCGGCGCTCCCGGGACCGCGACGGCAGCTACCGGAGCTGCAAAAGCAGCCGGCGTAAGCACAGGCGGAGGCGGCGGCGCAGCCGGTCCTTTAGTCGCTCCTCATCG
Seq A exon
GTGAGTATCGTGCCGTGCTGGGCCTCCCCTGTAACCTTTCTCTCGCAGGTGGAGAGTTGGGGTAAGTAGAAAAACTCACTTTCTACCTCGCTCTTGGATTTGGTTCGAGGAATGCTTAGGTTTGGTGCAGGGCTCGGCCACCGTCCTGATGCGACTCAGATGCGCTGTGTCAGCTCAAGTGCTGCCTCAGTGCAAGGATAGGAGTGCCTGGCAGGGCTGGCACGGCCCCCTGGGGCGGTGCTGCAGTCCAGCCCTGGCTCCTTTATCCCTTCAGAGCGCTGCTTTTGTTTGCTGGTGCTCATTAAGGGGCTGTGTAGGAACCCCGGCCAAGCAGCCTTCGCGTGAGGTTTGTGCAGCAGACATTTGGCTGTTCCCGGTCCCGCAGAGCTCAGGCTGTGTGCAGCAGTTCCCTGCTAGTCCCTGCCTTGGGCCTTGTGGCAGCAGCTCCATCTCTGAGCTAGGCCCCGGTGTCAGGGCAGGCTCCTTTTGGGTGGGCCCAGTGCATGTGGGATGGCACACGAGAGGATGCAGCTTGTGGTCCGCTCAGCTCAGGCGGAGGCAGCGACCAGCTCAGGCTCTTCCTGGTAGCATCCCCGGCTTTCTCTTCTTGTCTGTTCTGCTGTTCACCTCCTGCTTTTGTCAGAGTCCAGACGTGTTCTCTGCTCTGCGCTGGAGCTCTCGGTGTCGTTTGGTCCATTCACACCATAGGTCCAGGGCTGGGGTTACGGGCTGCATCCAGGTCCCCAGGCTGCTGTCTGGCTGTTCCCAAGTCTGGGGATACTTAGCTGAGCTGGAAGCAGGAGTTTTCTCTTCTCTGGTGTAGACCTCTTATCTGCCTCATCCCAGGCTGTCCCTGTTCCCCTTTGGGCCTTTGCTTCTCTCTCGGAAGTCAGCCTTTCCAGGATCAGCTTCTTTTAAGGGAGGGCCTAGGAAGGAGTGTCACATCTGCCCCCAGGCAGTTACTCTCCAATTCTGGTTTCAGATGGATCTTTTGTACCGAGAATTGCTTCCAAAAACCTCTGAATCCATCTCTTTTTGAGCACCGGGGGTGGAGGGGGAGCGGCGGGGGAGGTCGGAAGGGGTTGGGAGTGTCTGTGCAGGGCAGGACGTCCCACCTCCTGCCTCCTTTCCTCAGTGACCGATGTGGGGCTGTGGTGATGCCCCCCCTGTGCTCACTGAGCTGCAGAGCCACGCGTGGCCGCTCTGTCACCATTGATCCCGGACCCCAATGGCAGCGTTGTTCCACTCTGAGCCCCCCATAGGAGTGAGAGCAGCCCCTCCGCTGGCCCTCCTTGCTCTCACACTGGTTCGGGTGGGGCTGTTTGTAGGTTCTTTTTTTTTCTTTTCTTTTCTTTTAATTTTTTTTTTATTATTTTCTTTTTTGTTTTTCTTTTTGCTACGAGGAAAAGCAAAAACTGGTTTTTTTTGGTTTTTTTTTGGTTTTTTTGTTTGTTTGTTTTTTTCATTTTCTTTTCTGAGCTTAGTGTGTTGTATCTTGACATGTTCCCTTGCAATATCCCTATCGTTATATATTCCTCTGTGCCGTATGAATTGGCTGGGAATCTCCTCCTGCAACCCCTCCTCAATGTGAATTTCCAAACCACCCAATGCGTGACGCTGGCTGCTGCGCTGGTTTGAAAATCTGATTGAATGGTGAATGATGAATTCCCTGTCTGCCTGGGCCAGCAG
Seq C2 exon
CGGAGTCGACAGAGCAGCAGAAGGGCCAAGAGTGTGGAGGACGACGACGAGGGGCATCTGATCTATCGCGTCGGCGACTGGCTACAAGAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014632:ENSGALT00000023584:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.835 A=NA C2=0.406
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACGACGACCACTCAGCAGA
R:
CTTTCTTGTAGCCAGTCGCCG
Band lengths:
327-2016
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]