BtaINT0112581 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021900 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr3:55256566-55257390:-
Coord C1 exon
chr3:55257315-55257390
Coord A exon
chr3:55256741-55257314
Coord C2 exon
chr3:55256566-55256740
Length
574 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TTTATTTACAATATCCACAGGCA
3' ss Score
7.59
Exon sequences
Seq C1 exon
GTTACCTTTTTTAATCCAGTTATTGAAAGAAGACCAAAACTCCAAAGACAAAAGAAAATTTTTTCCAAACAACAAG
Seq A exon
GTAATTACTAAGAAATAAGGTAGAGAGTGTTTTGGTGTTATCTTAAATATTTTAAATGTACATACTGTTTAAAAAGTGATACCCATCTTTGCTTTTTGCTTATTTGTTCAGTTATTTACTTAATTTTATTAGGGAAAGTTTTAAACATATATATAGAGACTAGTGCAATGTAACATCACTCAGTTTCAACAACAGTCAACTCATGTCCAATTTTGTTTCATCCATGTTCCATCACTCACAACTTCCTCAGCTTATTTGAAGTGAACCCAGACATCATATTGATTCATCCATAAATATTACAGTATCTCTAAAAGATGAGAATTCTTTTTTTTTTTCAACCTTAACCACCTATCATTACTAGACTTAAGTGAGCAATTCCTACCTATTTATTTTTTAAACAGATTTTGCTTTTTTGCACTAGCCTTTAATAACAAATAGTTAAGAACTTTTTTTAAATGACAGATACTGTTTGTTCTTCATAAATTATAAACCAATGAATATGAATTTTTCAGTTATGGCTTTTGGTAATAAAAAAAATTACTTGTTCGGTTTTCTTTATTTACAATATCCACAG
Seq C2 exon
GCAAAACCTTTCTCAGAGCTCCTCAAATGAATATTAATATCGCCACATGGGGAAGACTTGTGAGAAGAGCTATTCCTACAGTAAATCATTCTGGCACCTTCAGCCCTCAAGCCCCTGTGCCTGCTACAGTGCCAGTGGTTGATGTACACATCCCTGAATTAGCACCTCCAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021900:ENSBTAT00000029201:10
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=0.458
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AATCCAGTTATTGAAAGAAGACCAAA
R:
TAGCTGGAGGTGCTAATTCAGG
Band lengths:
238-812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]