GgaINT0017806 @ galGal3
Intron Retention
Gene
ENSGALG00000006057 | CLK4
Description
NA
Coordinates
chr13:14312397-14312922:+
Coord C1 exon
chr13:14312397-14312526
Coord A exon
chr13:14312527-14312839
Coord C2 exon
chr13:14312840-14312922
Length
313 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
AAACTTTGCATGTTTTGCAGCAC
3' ss Score
6.6
Exon sequences
Seq C1 exon
AAGCGAGATGAACGCACCTTAAAGAACACAGACATAAAGGTGGTTGATTTTGGAAGCGCAACTTTCGATGATGAACATCACAGCACGTTGGTGTCCACGAGACATTACAGGGCTCCTGAGGTCATCTTAG
Seq A exon
GTCAGTGGAAGCTTTCAAACTTCCCGACAGATAACTGCAGTTCATCCAGGTGTCGTTACTTTGTAACCTGGAGGAGCGGCTCATGGTTCTCACAGTTCAGCCATCTCTTACAGATGGTGACTTTTTGAAAGTCTGAAGTAGAAGAAAAATTTCTTGAAGTTGAGATGCATCCCTCCTTCCTACTAACGAGAGTGAGGAGGGGTGTGAATGAGGAAGGCAGGCATCAGTTAATGCATGAAAACTGTGTATTCTTCATGGACTGTGGATTTTAAGAATATATTAAAAAGCAAAACAAACTTTGCATGTTTTGCAG
Seq C2 exon
CACTGGGATGGTCACAACCCTGTGATGTTTGGAGTATTGGCTGTATTCTAATTGAGTATTACCTGGGATTTACTGTGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006057:ENSGALT00000009766:10
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGATGAACGCACCTTAAAGA
R:
CTGAAACACAGTAAATCCCAGGT
Band lengths:
210-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]