GgaINT1009622 @ galGal4
Intron Retention
Gene
ENSGALG00000014632 | CLK2
Description
dual specificity protein kinase CLK2 [Source:RefSeq peptide;Acc:NP_001026497]
Coordinates
JH375217.1:6118-6830:-
Coord C1 exon
JH375217.1:6664-6830
Coord A exon
JH375217.1:6213-6663
Coord C2 exon
JH375217.1:6118-6212
Length
451 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
GACTCTGTTTGCTTCCTCAGTTC
3' ss Score
8.2
Exon sequences
Seq C1 exon
TCTCTGTGTCAGGATGTTTGACTGGTTTGACTACCACGGCCACATGTGCATCTCCTTTGAACTGCTGGGGCTCAGCACTTTTGATTTCCTGAAGGACAACAACTATCTGCCTTACCCCATCCACCAAGTGCGGCACATGGCCTTCCAGGTGTGCCAGGCTGTGAAAT
Seq A exon
GTAAGTGCTCACTGCTCCTCTCTCCGTTGGTCCTCAGCTGTGCTGCAGAGCCACACAGTTCCCATCCTCAGTGCCAGCTCTGCATTTGGGGGTCCAGAGCAGCGCAGTTTGGGCTGTGATGCTGCTCTGCCAGCTCTGAGGCTGAGCCTTCCTGCCCCTTTGGTGGTGGATGTGTGCTTGGAATGAACCCTTCTCCTTTTCCTGATGTTTTTGATGTGCGTGGGCTGGCAGTGACTGAGGGCACTTTGGCATTCCCCTGCTGTGTGCATTCTGGTGATCAATACGATCAATCTTTATGCTTCTTTTGAAGCATTTTGGCCTGGATGACCCTGACTGTTCACACCCAGCCCCAACTGTGAGCCAAACCGGTGCCAGTTGGAGCAAAACAAACTGATGTTAGCAGCTGTGCTTTGCTTCTGTTTCTCAGCTCTGACTCTGTTTGCTTCCTCAG
Seq C2 exon
TTCTGCATGACAACAAACTCACTCACACTGACCTCAAACCTGAGAACATCCTCTTTGTCAACTCTGACTATGAGCTCACCTATAACCTGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014632:ENSGALT00000023584:6
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
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:
TCTCTGTGTCAGGATGTTTGACTG
R:
CTTTTCCAGGTTATAGGTGAGCTCA
Band lengths:
262-713
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]