GgaINT1021746 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14122014-14122855:-
Coord C1 exon
chr8:14122679-14122855
Coord A exon
chr8:14122077-14122678
Coord C2 exon
chr8:14122014-14122076
Length
602 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
AATTTCAACCTTTTCAACAGATT
3' ss Score
6.85
Exon sequences
Seq C1 exon
CTTGATGTGTGAAAAGCGAATATTTGAAACTGTGAATAGTGTAAGACATCCCTTCTTGGTGAATCTTTTCGCTTGTTTCCAAACCAAAGATCACGTTTGCTTTGTAATGGAATATGCTGCTGGTGGGGATCTGATGATGCACATTCATACTGATGTCTTCTCTGAACCAAGAGCAGT
Seq A exon
GTGAGTATCCACCCCTTTCTGTGGCATTAGTGGAAGGGCGTTTTGTTATGTTTCACTGGGCAAGAACGACGGTATTGCCTCATGCCTCTACCTTATATCATTTCAGAAAATACCCCTGAGTTTTTAAAAGGGCAGATACCGATGTTATTTTCAACTAAAAAAACACATATGCAGATTAAGTGTACCTGAATCTAGGTTGAATGCAAATAATGGCATACAGATATTTCATGTTTATAGTTGGGGTTTTTTTTGGAGAAGATTACATTAAAAAGCTAAATCAGAAGTTAAAATAAGATGGAAGGTGAAAAAAAAAAAAAAAAAGAAGGAATAAGACAAATGAGGAATCCTTCAGTGCCACAATGGCAAACCCTACACAAAACTTGCTCTTCAGGCCAAGTAAACATATGTACAGCTTGCAAGTTTGAACACTGTTGGCATTTGAGTTTTAAATTCTGACCCTGTATAAAATGAATCAGTACCAGAAAATGCAAACCATAATTTTCAGAGGATGGCTAATAAAACAGATGCTTTATGATGAACTTCATATTCTGAAAAGCAAGACTCAAATCCATTGAAACCTCAAATTTCAACCTTTTCAACAG
Seq C2 exon
ATTCTATGCAGCATGCGTTGTTCTTGGACTTCAGTATTTACACGAACACAAAATAGTTTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:15
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(22.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.1=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:
CTTGATGTGTGAAAAGCGAATATTTG
R:
TTTTGTGTTCGTGTAAATACTGAAGT
Band lengths:
230-832
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]