GgaINT0124751 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5224280-5225040:+
Coord C1 exon
chr17:5224280-5224473
Coord A exon
chr17:5224474-5224844
Coord C2 exon
chr17:5224845-5225040
Length
371 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GTTCTACTTCATATTGCTAGGCT
3' ss Score
4.29
Exon sequences
Seq C1 exon
TCTATTTTGATCCTCACTGTATTTTATCTCCCAAATACCCAGTGAGACTGGGAACCACCATCAGTGCTGTGGAGCTGCGCATTGAGGAGCTGAGGCATCGTCTGCGCATTGAAGCTGCTGTAGCTGAGGGGGCAAAAAATGTGCTGAAGATCCTAGGAGGGAGTCGGGTACAAGATCGCAAATTTTTGGCTGAG
Seq A exon
GTAAGCACTTATTCAGGTCTTCTTAAAGAGCACTTTCGTGCCTCAACCAGTGATTTAGCCTGAGTGAGCAGAACTAACCATGTTATGAGTTTGGCAAATTCCCGACTGTGAGAACAGACGGTTTGGGATCACTTTCTCTTCTAGGGGTAATATGTCTCGCTTTGGTGAAACTACTTAGAAATGTTGGGAGTGGCACTGATGGGGCGGTCAGGATCTGTGGGAAAATATTCCCTCAAATCCTTTGTTACTAAGATGTTATCAGCTCTTTTTTGAGACCAACTTTAGTTGTTCATAAAGGAATAATAGTTCCTGGACTGGAGCTGTTCCTTTGAAAACTTCTGCCTGCTTTCTGTTCTACTTCATATTGCTAG
Seq C2 exon
GCTCAGGGTCGTTTGCAAGAGTCCTCTCAGAAGATTGACCTGCTGCGCTTGTCCTTGGAATGTCAGCTTAGTGGGCTTTCTCCAGATCACCCGAAACGAGCACTCATCAAGCAGGAATTAGTAAATACCTCTTCCCTGGGAGCACAGCATGGCATTATCCAACCCACTTCAGTCATCAAACCTACAGCCCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:6
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:
PF0218511=HR1=PU(54.2=60.0)
A:
NA
C2:
PF0218511=HR1=PD(43.1=47.0)
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:
TCTCCCAAATACCCAGTGAGACT
R:
GGGCTGTAGGTTTGATGACTGA
Band lengths:
358-729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]