GgaINT0047168 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10798110-10798517:-
Coord C1 exon
chr7:10798438-10798517
Coord A exon
chr7:10798201-10798437
Coord C2 exon
chr7:10798110-10798200
Length
237 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
AGTTGTGCTGTTTGTTGAAGGAA
3' ss Score
6.01
Exon sequences
Seq C1 exon
ACTCACGACAGCAAAGAGCACCTGGCAATGATGGAACGAATACTGGGGCCTCTGCCTAATCACATGATACAGAAAACCAG
Seq A exon
GTAAATTACACTTGCCTTTTTCTACATCCATTGCTTCATTTGTAAATGCAGTATTTTCAGGTTTAGTTTAACAGGAAAAAAAAGAAAGTAAATGCATCTTTTTGCTTTGTTTAAGAAGCTGCCTTCTCTTTAGTGGAATATTCTCAGATCGTTTCCCAGTGGGAGGAAACATGGGGGTTAAGATGCTTGGGAGGGGACGAGTGGGTTTTAAATAACAAGTTGTGCTGTTTGTTGAAG
Seq C2 exon
GAAACGGAAATATTTCCATCGGGACCAGCTGGACTGGGACGAGCACAGTTCTGCAGGGAGATACGTCGCAAGGCGCTGTAAGCCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:11
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(8.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.5=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:
ACTCACGACAGCAAAGAGC
R:
CTTCAGTGGCTTACAGCGC
Band lengths:
171-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]