GgaINT1021745 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14122679-14123958:-
Coord C1 exon
chr8:14123867-14123958
Coord A exon
chr8:14122856-14123866
Coord C2 exon
chr8:14122679-14122855
Length
1011 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TTTTTTCTTCCTATTTGCAGCTT
3' ss Score
10.75
Exon sequences
Seq C1 exon
GTGCTGCTGGCAGAGTACAAAAACACAAATGAGATGTTTGCTATTAAAGCCTTAAAGAAAGGAGATATTGTTGCTCGTGATGAAGTAGACAG
Seq A exon
GTCAGTTTGTAAATATCATGCATGGATTGTCTAAATCAGTTCTGGTTCTTTTCTGCATGCGACACGACTATAAGCTCTACCAAACAGTAACTGCTTTCAGTGAAAGCACAAAACAAATCTCCCTGTTCGGTTGGCTGTTATAGACCTGTAGCCTTTCTTCTGGGGCAAGGAAGAAGCAGGATAGACCAAGAACACTGTTTATTTTAGTGCTTCTCTTACCATGCCTGTATTACTGCTCTGGCTTTAAAGCCAACCCTGTTTTTCATTCAGATTCTCTTGTAATCATCACTTCTAATTGTTTTATAGAATTCCATCACATTCCAAGAGGACAGTGACTATGCTTTCTTTGCTGGCAGAAATACATAAGATGGTATTTCGCAACTTGTAACATTCTGTCATAACTCTGTTCTTCATATTTTCCCTTGTGTATACTACGCTCGTGTTGTTAATCTTTGTCCAAGTCAAACGGCAGTTATATCATCAGATATCTCAGTTCAGCACAAGAAGGTGCTTCTACAACTGTTCAATGTCTGTTTATGTTGCAGAAAAATAAATAACTGTATTAAGAATAAGCTGACAATCAACTGCATTAAGGAGAGATAATCAGGAGTGCTCGTAGATAGATATCTACAATATTGTAACTTTTGGCCTATGTATGTTATACATAATTAAAATGGATGCAACATGATGCTACATGATATTGACATGTACTGATTTGGAAGGAAAATGAGCAGGATTCTGTCTTCAGGGACCACTAAGTTGCCTTTTTTTACTTGCGAAAGACCAAATGTATCTCCTTGGATATCCTGGCATCAATTTAATATGTGTGGAAATATCAAAAGCTCTTTCCTAAAGAAAAATATTCTTGTTATCTTACTTGGAGGAATAGAGGGGGGGAAGCATAAGATCTATGTTACAAACCGTTTTCTGAGAGTTGAACTGTGGGTTCAGGATTCAGCTTTAGGTTTTACTGGTTTTTTTTTTCTGTTGTTTTTTTCTTCCTATTTGCAG
Seq C2 exon
CTTGATGTGTGAAAAGCGAATATTTGAAACTGTGAATAGTGTAAGACATCCCTTCTTGGTGAATCTTTTCGCTTGTTTCCAAACCAAAGATCACGTTTGCTTTGTAATGGAATATGCTGCTGGTGGGGATCTGATGATGCACATTCATACTGATGTCTTCTCTGAACCAAGAGCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(11.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(22.7=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:
GCTGCTGGCAGAGTACAAAAAC
R:
TGCTCTTGGTTCAGAGAAGACA
Band lengths:
265-1276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]