GgaINT0124755 @ galGal3
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
NA
Coordinates
chr17:5853999-5855151:+
Coord C1 exon
chr17:5853999-5854142
Coord A exon
chr17:5854143-5855075
Coord C2 exon
chr17:5855076-5855151
Length
933 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAA
5' ss Score
4.54
3' ss Seq
CCCCTTTGCTTCTCTGGCAGGTG
3' ss Score
10.48
Exon sequences
Seq C1 exon
TCTCGTGAACTCGAAATTTCAATTTACTGGAGAGACTGGAGAGAACTATGTGCAGTGAAGTTTTTACGTTTGGATGATTTCCTTGATAATGAACGCCACGGGATGTGCCTCATGCTTGAACCCCAAGGAATGCTTTTTGCAGAG
Seq A exon
GTAGAAATGTGAACTTTTGTTTCTTTGTCAGAGAAATCTGTCTGTTCAGGGTGCCTGCCCTGAGAGCAGTTGTTCAACCCAGTGTACAAGGAACAGAAGGAGTGATAATCTAGAAGAGTAGAGTGATACTTGAAGTACTTTTCCATCAATATCACATATACAAATAAGGAGCAATATGATATTATAAGACATACCCTGAAGTGACACTTTAGCTGCTACTCTGCAATTATGTGTGTGCACTGTGAAAACCATTGTTTTTTATTTGCTTTCATTATGAGTCATTGGTGACACTTTAATTAGACGTAGGGCTTAATGGTCAGGTTTGAATTACACAGGCTATAGAATCAGAGTTCAAAATTCCCTCTGGGTATACTTATTTTACCATCTTTCTGAGGTTAGTAATAAAGAGTTAAATGCCATCCATGAAGAGATCATCCAGATAATCCTTTACATGCTACAGTACTGTCTTGTTTGTGTTGTGATGAAAGATCCCATGGTTAACTTTCCAAAAGCAGGATCTTGACCTGACGTACCAAAATCTACCTCCTGTCCTTTGTGTTTAGGGGTTGACTTTTTTTTTTTAATTTAATTTTTGTGCTGTGGACTGCTGCTTTTTTTTCCCCACCTTACAAATGGCTGCATAATAAAGCAGCTTTTTATGTATCTCTTTATGAGGTAGATTAATTTTATTTAGGATATAAATTGGTCTCAAGTTTTTGGGTTCTCTTCATTTCAGGACACAGAAAATTCCAACCACAGTTGAAATAACAGATGTTAGACAGTGAAGCTAGAATAACATGATCTGCAATCTGTGGGAGTGACTCCTAGCTTACCAAAAAGATATTAATGGAGAATTTGAGAGAGCATGTGTGCAAGTTTGCATTCGCAGTGTAAATGCACTATTTTGAAAAATCCCCTTTGCTTCTCTGGCAG
Seq C2 exon
GTGATGTTCTGTAATCCTGTCATTGAGAGAAAGCCAAAGCTGCAGAGACAGAAACGTATTTTCCCCAAGCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:9
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=0.038
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:
TCTCGTGAACTCGAAATTTCAATT
R:
TCTGCTTGGGGAAAATACGTT
Band lengths:
217-1150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]