GgaINT1021750 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14118370-14119848:-
Coord C1 exon
chr8:14119741-14119848
Coord A exon
chr8:14118451-14119740
Coord C2 exon
chr8:14118370-14118450
Length
1290 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
AATCTTTCTTGTTTTGTCAGCTG
3' ss Score
6.34
Exon sequences
Seq C1 exon
TCTCCTTTCCCTGGAGATGATGAAGAAGAAGTGTTTGACAGTATTGTAAACGATGAAGTAAGATATCCACGATTTCTGTCTACAGAAGCCATCTCTATAATGAGACGG
Seq A exon
GTAAGAAATGAAATAATTAAAAAAATAGCGTTTCCCTCTTGTCCTTTTTCCTCTTCCGTCCTATGGAATTTAATAACTTTCATGAAGAATACTTTTAAGAACCTGTACTCATTCTTTTCTACAACCAAATTTCAGACTTGCTTCATTTATGCTGTGCCATGCCATCACCCAGTTTCATCTTAAAAGAAAACTCAGTGCCATTTCACTTTCTTATACGAGATCAAGCTTTTCTTATTGAAATGTAAAACACTAGAGCTCTATTTTCTCCTAGAACTAAGTTTCATAATCATATCTAACTAGAGAAGTTCAGGTTTCTTCTTCTTACAGAACACTGCTGCATTGACTGACTTGGTAGCTTAATGTAGTCACATGAATATTTTAATTCAAAGACTTCTAACTCCTTTTGGTTCCATTCCAACTGGGGCAGGGAACACCATACACGTGGCACCTACAGAGCCCCACTCTTCTCAGAGAACAGCTGATTTTGTGATTTTTATTAATGTTATTCCATATTGTAATGCCTCTACTTAACTTCAGACTTTTAACTTCTTTAGGTGTCTGAGTTAGAGGCTCATCTCAGTTGACGGAAGAGCAGTTCTTGGAGCTGGTTCAAAGTCTGACACTGAGCACTGTTAGTCGAGCACCCAATTTAGGAGTAGGCAGTAGTGTGTAAGTTAAAGCACGTCTTAGTAAGTACTGTTAATAATTACGTACGATAAAGCAGAAATATTCTGTAGCTCAAAATGAGTGCTTCCCCCCAGGAAGGGGATTGTTTTTCTAGAGTAAGGAAAAACAAATTCTCTTTTAAGGCAGTACCAAAAGAAGGTATGCCACGATGAGGAAAAACAAAGGAAGGAATCTACTGACCACTGAAGTACCCTCATCAGATTTGTTCTCTTCTGAGCCAAGCAAGCAGAAATTTTAGCTTATGTAAGTTCTCTATCCTCTCTATCAGAAAGTACGCTTCTTATTATGCGTGCTGAACACTATCCTCACAAATTACTTCAGGTGCTAAGATTTACAGAGTAAGAGAGGCAAGTCCTCTCAGTACATGTTCAGAGCTGGGCTGCTTGTACAATCTACCTGTGAGATTCAGCTGACACTAGAAGAGAAATGCTGTCTCTTTCTACACAAAGTTTCATCTTTACCTTTCTCTGAGGACCACGAGTTAGGCAATATGAACTTCACCATCCATCCAGTCTCAGTGTTGACTCTTACACGGTAGCACTTATCCCTCCTTCCTCTCACTACCTCTGAATTTTCACACTTAAATCTTTCTTGTTTTGTCAG
Seq C2 exon
CTGCTACGAAGAAATCCAGAGCGACGTCTTGGAGCTGGAGAGAAAGATGCTGAGGATGTAAAGAAGCATCATTTCTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:19
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=0.148
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(13.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(9.6=92.6)
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:
TCCTTTCCCTGGAGATGATGA
R:
CCGGAAGAAATGATGCTTCTTT
Band lengths:
187-1477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]