GgaINT0017804 @ galGal3
Intron Retention
Gene
ENSGALG00000006057 | CLK4
Description
NA
Coordinates
chr13:14311860-14312223:+
Coord C1 exon
chr13:14311860-14312026
Coord A exon
chr13:14312027-14312128
Coord C2 exon
chr13:14312129-14312223
Length
102 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTTTCCTTTGTTTCTTACAGTTT
3' ss Score
11.27
Exon sequences
Seq C1 exon
CCGCTGTGTCCAAATGCTGGAATGGTTTGATCATCATGGCCATGTTTGCATTGTTTTTGAGCTGCTTGGACTTAGCACCTATGATTTCATTAAGGAAAACAGCTTTCTGCCATTTCATATTAATGACATTAGAAATATGGCTTATCAAATCTGCCAATCTATAAACT
Seq A exon
GTAAGTAAACCTGATTACTGTTAGCAAATGTGTTTGTGTTCTCTCTTCACTTTGGTAAATTAACCTGTTAATTATGGAATATTTTTCCTTTGTTTCTTACAG
Seq C2 exon
TTTTACATCATAATAAATTAACTCATACTGATTTAAAGCCTGAAAATATTTTGTTTGTGGAGTCTGATTACATAGTGAAGTACAACGCAAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006057:ENSGALT00000009766:8
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(17.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATGGTTTGATCATCATGGCC
R:
TTTTTGCGTTGTACTTCACTATGT
Band lengths:
242-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]