BtaINT0112593 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021900 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr3:55231810-55232273:-
Coord C1 exon
chr3:55232193-55232273
Coord A exon
chr3:55232107-55232192
Coord C2 exon
chr3:55231810-55232106
Length
86 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
TTTTATATTTTGTAATCCAGCTA
3' ss Score
5.74
Exon sequences
Seq C1 exon
TTATTAAGAAGAAATCCTGAGCGACGCCTTGGAGCTGGTGAAAAAGATGCAGAGGATGTGAAAAAACACCCATTTTTCCGA
Seq A exon
GTAAGTGTGAAAGTATACAAATTTTCTGAAACTCTAGCAGTTAGAAGTAGGAAACTAAACTGGTCATTTTATATTTTGTAATCCAG
Seq C2 exon
CTAATTGATTGGAGCGCTCTGATGGACAAAAAAGTTAAGCCACCATTTGTACCTACAATTAGAGGACGGGAAGATGTTAGTAATTTTGATGATGAATTTACCTCAGAAGCACCTATTCTGACTCCACCTCGAGAACCAAGGATACTTTCAGAAGAGGAGCAAGAAATGTTCAGAGATTTTGACTACATTGCTGATTGGTGTTAAGTTCCTACACACTGTGAAACCAAGCAGACTGACTCACAAGAAGACCTCTTAAAAATAGCAGCCCTTCATTTGCTCTCTGTGCCAACAAAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021900:ENSBTAT00000029201:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.254
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCTGGTGAAAAAGATGCA
R:
AGGTGGAGTCAGAATAGGTGCT
Band lengths:
181-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]