GgaINT0124753 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5225446-5225992:+
Coord C1 exon
chr17:5225446-5225637
Coord A exon
chr17:5225638-5225882
Coord C2 exon
chr17:5225883-5225992
Length
245 bp
Sequences
Splice sites
5' ss Seq
GTAGTGAGT
5' ss Score
5.8
3' ss Seq
CACATTTCTTCTTTGTCCAGATG
3' ss Score
8.17
Exon sequences
Seq C1 exon
GAACGTTGGAAGTGAGACTGATGGGGTGTCAGGATCTATTGGAAAATGTTCCTGGCCGTTCCCGAATGGCTGGTTCTTCTCCTGTCTGCGGCAGCCCAAGTGACTTGAAGTCCTTTTCCCTAACAAGAGTTGGCCTGGGTATCCATGGCCGTAGCGTTGCAGGAAAGTACCTGCGAAATGAAGAGCTATGTA
Seq A exon
GTGAGTATGAGGCTCCTTGCTGAGATGTGAGTGGCACTTAGGGGCATGGGGCTTCTCTTCCAAGTACTATGTTAGCCTAGTACGAGGCTGCAAAACTAAGAGTGAGTGAGTCACATCATACCTAATCCTCCTAACTGTCTCCTGGAAATTATATTTGGTTGGGATAGTCACCTTCAGCAGGAGAGGTTTATCTCTAGTTTTATAGCACTGTAAAAGACTATAATCCACATTTCTTCTTTGTCCAG
Seq C2 exon
ATGAAGTCCTTGCTGTGCTCAAAGTGGACAATAAAGTCGTTGGCCAAACAAACTGGGGACCAGTAAATAACCAGGCATGGGACCAGAGCTTTGTAATTGAGCTAGACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTGGAAGTGAGACTGATGGG
R:
AGCTCAATTACAAAGCTCTGGTCC
Band lengths:
292-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]