GgaINT1021742 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14124202-14124947:-
Coord C1 exon
chr8:14124818-14124947
Coord A exon
chr8:14124339-14124817
Coord C2 exon
chr8:14124202-14124338
Length
479 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
AAATGCTGTTTTCTTCACAGGAT
3' ss Score
9.52
Exon sequences
Seq C1 exon
TGACTCTCCTGTAGCCAAACTGGACTTTGAGCTGGAGCCTGAGCCTCCACCTGCTCCGCCTCGCGCATCTTCCCTTGGGGAAATATGTGAACCTTCCTCTGAGATGAAGGCTCCTGACATGCCAGCTCAG
Seq A exon
GCAAGTAAAGTTAAGAATTTCAGGCTGTATGGTTTTATGAGGGCTGTAATGTTAATATCTTTATGATGGGCTTCTTCCTTTACATTTAAGTATTATGCTCCCATAACTTACACATACAAAACTGTCTAAACAGAATGCTGTGATTATCCACGGTGGCAAACTGTTTCTGTGATTTTTCACGAGGGGGAAAAAAAATGCCTAAAAATCATGGGAGTATTCAGGAAAATGTAGGGGTTTTTTTGTTTTCTTTTGTTTTTGTTTTTTTTTAAGAAAGAGCAGAATAACTGGAGGAGTAGCTTTCATCATTCTGTTAAAGGCTTGTTTATATGTATTATCTTAAGGTATAAAGTTTTGGCTTAGATAATTCTTGTGTTAAGCATATGGAATTCTTAAGGTAAACATTTCTGTATCTCTTTGCCTTAGCAATCTGTTTTAAATTTTCAAAGTTTTAAAATTTCCAAATGCTGTTTTCTTCACAG
Seq C2 exon
GATGATGTATCAACTTTTGATTTTGAGAATGGTAGAAATAGTATTGTTCCAAAACTCCAGCCTGGAATAATCTGTGAGTCTGATGTTCCACATTCAGACATAAAATACACCAACATCCGAGAACCTGAAGATAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=NA C2=0.337
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGACTCTCCTGTAGCCAAACTG
R:
ATCTTCAGGTTCTCGGATGTTGG
Band lengths:
262-741
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]