GgaINT1021741 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14124818-14125353:-
Coord C1 exon
chr8:14125179-14125353
Coord A exon
chr8:14124948-14125178
Coord C2 exon
chr8:14124818-14124947
Length
231 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTATTTTATTTTCTTGCCAGTGA
3' ss Score
7.42
Exon sequences
Seq C1 exon
GCAAAACATTTCTCAGAGCTCCTCAGATGAATATCAATATAGCCACTTGGGGAAGGCTGGTGAGAAGAGCTATTCCTACAGTGAACCACTCTGGCACCTTCAGCCCTCAAGCACCAGTACCTGCCACAGTGCCAGTGGTTGATGCACGCATTCCTGAACTGGCGCTGCAAGCCAG
Seq A exon
GTAGGCAGCACCTACAGCTTCTTAATGCTCTTAAGAGAGAGTAAAGTAATAAAATGTTTATGCAAAAAGGTTTGTAAAATGAGTTTTCTGCAACACCGAAGACAGACCTTTCAGCATTCTGTTTTGGAAATCTATTTTATAGACAGATGGTACGTAACATCCAGTTTTAAGTTGGTTTTTATTAAACCTTTCTCTGCTGTATGCTGAGAAGTTATTTTATTTTCTTGCCAG
Seq C2 exon
TGACTCTCCTGTAGCCAAACTGGACTTTGAGCTGGAGCCTGAGCCTCCACCTGCTCCGCCTCGCGCATCTTCCCTTGGGGAAATATGTGAACCTTCCTCTGAGATGAAGGCTCCTGACATGCCAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.864
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACATTTCTCAGAGCTCCTCAGA
R:
GGCATGTCAGGAGCCTTCATC
Band lengths:
293-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]