GgaINT1021748 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14121193-14121925:-
Coord C1 exon
chr8:14121849-14121925
Coord A exon
chr8:14121336-14121848
Coord C2 exon
chr8:14121193-14121335
Length
513 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CATTAATTGTAACCTTTCAGGAA
3' ss Score
7.52
Exon sequences
Seq C1 exon
AGATTTGAAGTTGGATAACTTATTGCTGGACACGGAAGGCTTTGTGAAAATAGCTGACTTTGGTCTTTGCAAAGAAG
Seq A exon
GTAATGGCTCTTTATTTATTTATATATTTATTTTAGGGAAGTTCCATCAGCCTTCTTTCTTGCTCTTGACTGTTCCTTACTGATAGATGTGTACTTCAGATGTTGATCTGGTCTCATTTGAAGGAAAAATACATCTCAGTACAATTAGGGGAGACAGAAGGAAGTTCTTTAATGGGGATCTTTTTAAGTTGTGAGAAATAGCTGGCAGCTGACTCTTCATCACATGCTCTAGAACTCTTTTCCTTATTTTAAACTAAAGTTGGCACTGTACAGTGAAATCAAGGTGTAGAGTTAGATATAGAAAAGCTTATACAGAAGCACACTTGGAAGAAGGGCATGGGAGGGAAGAATATGGGAATGTTTACTTAACTCATTAGAGTGAGTTTTCAGGACAGACCCCAGGACCTCATTATCACTTAGCTGAAGTTGCGTTAGAGAGGTTTTGCTTGCTAAAGGAATAATGTGTGGAGTTGCAGAAAACTTGCTTGCTTTTCATTAATTGTAACCTTTCAG
Seq C2 exon
GAATGGGATTTGGAGACAGAACAAGCACATTCTGTGGCACACCAGAATTCCTTGCTCCAGAGGTGCTGACAGAAACTTCCTATACAAGAGCTGTAGACTGGTGGGGTCTTGGTGTCCTTATCTATGAGATGCTTGTGGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:17
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(10.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=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:
TGGATAACTTATTGCTGGACACGG
R:
TCACCCACAAGCATCTCATAGA
Band lengths:
208-721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]