GgaINT0124753 @ galGal3
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
NA
Coordinates
chr17:5852977-5853523:+
Coord C1 exon
chr17:5852977-5853168
Coord A exon
chr17:5853169-5853413
Coord C2 exon
chr17:5853414-5853523
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:ENSGALT00000007470:7
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]