GgaINT0124756 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5227545-5228681:+
Coord C1 exon
chr17:5227545-5227620
Coord A exon
chr17:5227621-5228520
Coord C2 exon
chr17:5228521-5228681
Length
900 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTTGACCATGACTCCTCCAGGGA
3' ss Score
5.96
Exon sequences
Seq C1 exon
GTGATGTTCTGTAATCCTGTCATTGAGAGAAAGCCAAAGCTGCAGAGACAGAAACGTATTTTCCCCAAGCAGAAAG
Seq A exon
GTAACTGACTATCTGGGGTGTGGGTGAGGGCAGGAGTTTGCACAAGTAGTCTGCCATGCACTCCTATCTCACTAAATTGGTGAGATGCATTAAATGCTTGTTAATTACTATGTGTAAGTAGGTGGATTTTATTATTATGTTATAATGTTCAGTCACAAAAAATGCAGGCTGTCTGGTTGCAGCATAGTGTATAATGTGATACTTCTGCAGTGTTTCTATTCAATTACCAGTGTTAGGAAGATACAATTACTACTATTTAACAGACTTCTTCGCAAGATCTAGGACTTGAGCTGTACTAATTTGCCCAGCAATGTGTTACTGATGAAAGAACAGGTACTGGAAAACTTCCTGGAAAAATATAAATTGTAGAAGACTGTAGCATGAACAGGCTACTGATTGTCGAGGCTTTGGAGTTGGCGTGTCAGAGTAGGGACTGGAATAACTTGCATACTTTCTTTTTTGTCTGCAATTTTTTTTTTCCTGTGAAGCTGAGTAAGGTAAGACTTCACATACAGAGGATTCTTGTCAGTGGGGATAAACTTGATTTTATATTTATGGAGGTGGTAAGAATAATACTTTTCTTTATTCTCAGCTTTCTGTTAACAGGCTGAATGATTAAAGTACAGCGTACAAATAGAAGAAAACTTGGCTTAAAAGAAGATAATTAAAAATATATATTTTATGAAGCTTCTGTTTGAGGACTGTTATGACGTTATACAGATCTATTTCATCATCATGATTAGACTTCATTCCCTAAAAGAAAGTTCATTCTCTCTCGAGTGCATTACTTTTTTCTGAGTAACCCCACAGGTGTTTGGGTGATAATGGTAGTTTAACAGTTCATCAGTCTGTAATCCGTACGTTGTAATCTCAGCAATGTTTTGACCATGACTCCTCCAG
Seq C2 exon
GGAAAGAATTTCTCCGAGCTCCTCAGATGAACATCAGTGTTGCTGCTTGGGGTCGCCTGATGATGAGCTTCCTCCCTCCGTGTAGTTCCATTAGTACTCTGAGCCCCCCACTTCATGATTCCATACATGCAGATTTCTCTCCAGTTCCCCTACAAAATCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:11
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:
GTGATGTTCTGTAATCCTGTCATTGA
R:
TGTAGGGGAACTGGAGAGAAA
Band lengths:
230-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]