BtaINT0112600 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021900 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr3:55257315-55257857:-
Coord C1 exon
chr3:55257714-55257857
Coord A exon
chr3:55257391-55257713
Coord C2 exon
chr3:55257315-55257390
Length
323 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
TTAAATTTTCTTCACTGCAGGTT
3' ss Score
9.97
Exon sequences
Seq C1 exon
TCACGTGAACTGGAAATTTCAGTTTATTGGCGTGATTGGCGATCTCTGTGTGCTGTAAAATTTCTGAGGTTAGAAGATTTTTTAGACAACCAACGGCATGGCATGTGTCTCTATTTGGAACCACAGGGTACTTTATTTGCAGAG
Seq A exon
GTAATAAATGTATTTTATTTTAAGTATGCATAACTGCAATTGAAGTTATATATGTAAGCAACATGATGTAGAATGGGAAGAGTATTTAGGCTGAATGACAGATAACTTGAATTCTTGGCTCAACTCTGCCACTAAATAGTATATTACCCTAAGACAAATCATTTTTCTTTTCTAGGTCTGTTATCTTATCTAGAAAATGAGGGGATGGAACCAAATTATATCTTAGATTCTCTTAAGTTTTTAAAACTTAGAAAGTTTACTGAATTTCATGAACCATGAATCTAATGCTGTATTCATGTCAACTTAAATTTTCTTCACTGCAG
Seq C2 exon
GTTACCTTTTTTAATCCAGTTATTGAAAGAAGACCAAAACTCCAAAGACAAAAGAAAATTTTTTCCAAACAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021900:ENSBTAT00000029201:9
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:
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:
TCACGTGAACTGGAAATTTCAGT
R:
TCTTTTGTCTTTGGAGTTTTGGTCT
Band lengths:
199-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]