GgaINT0047166 @ galGal3
Intron Retention
Gene
ENSGALG00000023556 | CLK1
Description
NA
Coordinates
chr7:12360274-12360770:-
Coord C1 exon
chr7:12360641-12360770
Coord A exon
chr7:12360334-12360640
Coord C2 exon
chr7:12360274-12360333
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
CACTGGGATGGGCGCAGCCATGTGATGTTTGGAGCATTGGATGTATTCTCATAGAATANN
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023556:ENSGALT00000039169:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
AAACGTGATGAGCGCACACTA
R:
ATGAGAATACATCCAATGCTCCA
Band lengths:
182-489
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]