GgaINT0124754 @ galGal3
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
NA
Coordinates
chr17:5853414-5854142:+
Coord C1 exon
chr17:5853414-5853523
Coord A exon
chr17:5853524-5853998
Coord C2 exon
chr17:5853999-5854142
Length
475 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CCATCACCCATTTCCTCTAGTCT
3' ss Score
6.14
Exon sequences
Seq C1 exon
ATGAAGTCCTTGCTGTGCTCAAAGTGGACAATAAAGTCGTTGGCCAAACAAACTGGGGACCAGTAAATAACCAGGCATGGGACCAGAGCTTTGTAATTGAGCTAGACAGG
Seq A exon
GTAAGATGGCTTAAGTTTTCCTGAGTTGTGTTTGTTTTTCCATTTCACCTTACACAAATCGTTCATTTAGTTGCAATTCAACTCTGTATTGGCACTGTCCCCATGTCCTTTTATGTATCAGTTATCTTAGTCTTCCCCTCAAGGCAGTGCATCTCTGGCAGAAATTCAGCCTGAACAACATCTGTTGTCCTTTGCTCTGTATCTAAGCAGTTTTATTTTATCTTACCAGCAAAGCGACTCTAAGAAAGATTCCTGAAATGTGGAGCAAAGACAGCTATCTCCAAAAGGTTTTGTAGCTGAGAAGATCTGAAAATGTCAGAGGCAGAGGGGGAGCAGAAAGTTGAAGAAGTTTCTTATGCATACTGTCTAGTTAACCAAGTTTAACAGCAGCATGTGTGTGGCGTGTCCAGATCACGGGGCAGTATGTAACTCTTCTGCTTTTTTGTCTCCACCACCCATCACCCATTTCCTCTAG
Seq C2 exon
TCTCGTGAACTCGAAATTTCAATTTACTGGAGAGACTGGAGAGAACTATGTGCAGTGAAGTTTTTACGTTTGGATGATTTCCTTGATAATGAACGCCACGGGATGTGCCTCATGCTTGAACCCCAAGGAATGCTTTTTGCAGAG
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=0.000 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:
TGAAGTCCTTGCTGTGCTCAA
R:
GCAAAAAGCATTCCTTGGGGT
Band lengths:
249-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]