GgaINT1009612 @ galGal4
Intron Retention
Gene
ENSGALG00000028438 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr7:10799535-10799889:-
Coord C1 exon
chr7:10799723-10799889
Coord A exon
chr7:10799630-10799722
Coord C2 exon
chr7:10799535-10799629
Length
93 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
CTGTATTTGTCACCTTGCAGTTT
3' ss Score
8.6
Exon sequences
Seq C1 exon
TCGCTGTGTCCAAATGTTGGAATGGTTTGAGCATCACGGCCATGTCTGCATTGTTTTTGAGCTGCTGGGACTCAGTACCTATGACTTCATTAAAGAGAACGGCTTTTTGCCATTTCGGTTGGACCACATTAGACAGATGGCGTATCAGATTTGCAAATCTGTGAACT
Seq A exon
GTAAGTACATGCACGTATGTTGGTTTTATTTAGAACTTGTTTATTTTTCTTCGTGGGACTTGCTAACTTATCTCTGTATTTGTCACCTTGCAG
Seq C2 exon
TTTTACATTTAAACAAACTGACACATACAGACCTGAAACCGGAAAACATTTTATTTGTCCAGTCTGATTATGTAGAGGAGTACAACCCCAGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028438:ENSGALT00000044904:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGCCATGTCTGCATTGTTT
R:
TGTTTTCCGGTTTCAGGTCTGT
Band lengths:
180-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]