GgaINT1009613 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10798930-10799449:-
Coord C1 exon
chr7:10799320-10799449
Coord A exon
chr7:10799013-10799319
Coord C2 exon
chr7:10798930-10799012
Length
307 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
TTCTGGGTTCTTTTTCACAGCAC
3' ss Score
7.96
Exon sequences
Seq C1 exon
AAACGTGATGAGCGCACACTAAAAAATCCGGACATCAAAGTGGTGGATTTTGGCAGTGCAACATACGATGACGAGCATCACAGCACTCTGGTGTCAACGAGACATTACAGGGCTCCTGAAGTTATTTTAG
Seq A exon
GTCAGTAGAATTCATTTTGGTCCAAGAGAGATAGTGTGTTTTTCCATTCAGTGCTGATAATTATAAGCAGTGACCACATATGGCAAACTGGAAAAAGGTCTTATTCAGAACTGTGCCTGGCTGGGCAGAACGTGTCATGTTTTCGTAGTGGTAATGAGCTTTGTGAAGTCTGTCACATGGATCTCTTTCACCTGGAGGATTTTTTTTTTTATGCTGTTAAGCTGTGCTTCAGAAATACCTGTACTTGGCTTGAGCTGTTAAATTGTATCTTGTTCTAACCCTGATGCTTCTGGGTTCTTTTTCACAG
Seq C2 exon
CACTGGGATGGGCGCAGCCATGTGATGTTTGGAGCATTGGATGTATTCTCATAGAATACTACCTCGGGTTCACGGTATTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:9
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTGATGAGCGCACACTAAA
R:
GGAAATACCGTGAACCCGAGG
Band lengths:
210-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]