BtaINT0112584 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021900 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr3:55253911-55254198:-
Coord C1 exon
chr3:55254068-55254198
Coord A exon
chr3:55253987-55254067
Coord C2 exon
chr3:55253911-55253986
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
ATCGGCATTACTGTTTTCAGATC
3' ss Score
5.93
Exon sequences
Seq C1 exon
GATTCCGAAACTGTTTTTGATACTGAGAATGACAGAAACAGAATACTTCCAAAATCTCAATCTGAATATGAGCCTGATATCCCTCAGTCAGGTCTAGAGTATAGTGGTATTCATGAACTTGAGGACAGAAG
Seq A exon
GTAAAGAATATATCCACAGCTTTACTTACCTGTTTGGTCCCATGCTTTTGCCTTATTTTTAATCGGCATTACTGTTTTCAG
Seq C2 exon
ATCTCAACAAATGTTTCAGTTCAGTCTACAAGACTTCAGATGTTGTGCTGTCTTGGGTAGAGGACATTTTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021900:ENSBTAT00000029201:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.841 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(11.8=50.0)
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:
TGATACTGAGAATGACAGAAACAGA
R:
TCCTCTACCCAAGACAGCACA
Band lengths:
178-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]