GgaINT0047168 @ galGal3
Intron Retention
Gene
ENSGALG00000023556 | CLK1
Description
NA
Coordinates
chr7:12359480-12359907:-
Coord C1 exon
chr7:12359808-12359907
Coord A exon
chr7:12359571-12359807
Coord C2 exon
chr7:12359480-12359570
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
AAATGTTCATTTTCTTCCAGACTCACGACAGCAAAGAGCACCTGGCAATGATGGAACGAATACTGGGGCCTCTGCCTAATCACATGATACAGAAAACCAG
Seq A exon
GTAAATTACACTTGCCTTTTTCTACATCCATTGCTTCATTTGTAAATGCAGTATTTTCAGGTTTAGTTTAACAGGAAAAAAAAGAAAGTAAATGCATCTTTTTGCTTTGTTTAAGAAGCTGCCTTCTCTTTAGTGGAATATTCTCAGATCGTTTCCCAGTGGGAGGAAACATGGGGGTTAAGATGCTTGGGAGGGGACGAGTGGGTTTTAAATAACAAGTTGTGCTGTTTGTTGAAG
Seq C2 exon
GAAACGGAAATATTTCCATCGGGACCAGCTGGACTGGGACGAGCACAGTTCTGCAGGGAGATACGTCGCAAGGCGCTGTAAGCCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023556:ENSGALT00000039169:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(30.4=93.9)
A:
NA
C2:
PF0006920=Pkinase=FE(29.4=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:
TGTTCATTTTCTTCCAGACTCACGA
R:
CTTCAGTGGCTTACAGCGC
Band lengths:
188-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]