GgaINT0124765 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5233929-5234430:+
Coord C1 exon
chr17:5233929-5234071
Coord A exon
chr17:5234072-5234322
Coord C2 exon
chr17:5234323-5234430
Length
251 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
AAAAATTGTCACAATTGCAGTCA
3' ss Score
4.32
Exon sequences
Seq C1 exon
GAATAGGTTTTGGAGACCGCACAAACACCTTCTGCGGCACTCCCGAATTTCTGGCTCCGGAAGTCCTCACAGACATCTCATACACTCGGGCAGTAGACTGGTGGGGACTGGGTGTACTCATCTATGAGATGCTTGTTGGTGAG
Seq A exon
GTAAGACCACATATCTCTTAGAGAATCTCATCAAGCAGTCTTGGGCAGAGCAGTACCTGATTATCTGAGATAAAATTTTGACAAAAGCAGCCAACTATCTATTAGTTGTTATTAATACTGTGGTATTTAAGTAATTTTTCTGTGCTTGCCAAATAGTAATTGATTTGTACAACTCCTCGCTGTTCTCATTCCTATATATTAGCAAGGAATGGGTGCCATGTATGTTAAATTAAAAATTGTCACAATTGCAG
Seq C2 exon
TCACCATTTCCTGGAGATGATGAGGAAGAAGTCTTTGATAGCATTGTCAATGATGAAGTCCAGTATCCACGATTCCTTTCATCAGAGGCACTTTCTATAATCCGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:31
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=0.028
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.5=100)
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:
AGGTTTTGGAGACCGCACAAA
R:
TGCGGATTATAGAAAGTGCCTCTG
Band lengths:
245-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]