GgaINT0124767 @ galGal4
Intron Retention
Gene
ENSGALG00000004689 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr17:5234965-5236535:+
Coord C1 exon
chr17:5234965-5235045
Coord A exon
chr17:5235046-5235652
Coord C2 exon
chr17:5235653-5236535
Length
607 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTCACTTCCTTCTCTTACAGGAA
3' ss Score
12.96
Exon sequences
Seq C1 exon
CTTCTTCGGAAGTGTCCAGAGCGTAGACTAGGAGCAGGGGAAAAAGATGCAGAAGAGATTAAAATCCAACCCTTTTTTAAG
Seq A exon
GTAAGAATTCACTTTATTCCTCCCTCCTAGCTCCTGTATTTGAGATGAGAGTGGTTTGCTTTCTGTTGGTACTGAGGCAAATTTCCATTATTTATCAGTGTGATCTTAGTGGCAGCTTCTATTGCATCTCATTGCTCTATTCAGGCATTAGCATTTCAATTCATGTTGGCAAAGACAACCCTAAGTGTGTTTTCTGGGCTCTGTAAGCTTCCAGGGCCAGCTTGTTATTCCAGATTGTGCTGCTTCTATGTACGAATATACATTTCTTTTAAGCCATCACCAAATATTCTGTTATGAATCAAACTGCAGCAGTCAAAGATGTGGTCTAGTGATGACAGATATTGCCATCCAGTCTAGTTGGTGGCACCTACATTTGCAGAATATACAAGAATCCTAAGAGAAGCAGAGGTTAAAGACACATTTTGGGTTAGTAGCATATGTTTGCTCTAGGAAAGAGTGTTACCATTCCTCCAGGTGATGTTGAATCTCTATACTACCTGGCCTGCACCAACTGTGTTGTTTGCTTTGGCGTGTATTTTCGTTTCATTTTAACTTCGCATTTCATAAATAATGTCAGCCTGGACTGGTTCACTTCCTTCTCTTACAG
Seq C2 exon
GAAATGGATTGGGATGCTTTGTATGCCAGGACTCTGAAGCCCCCTTTTGTACCCACTCTAAAAGATCCAACAGACATTAGCAACTTTGATGAAGAGTTTACATCACAGAAGCCAATTCTGACTCCTCCAGAGGAGGTTGCTCTCCTAACCCGTAAGGAGCAGGCTGTCTTCAAGGACTTTGACTTTGTCTCCAAACACCTTTTGTATGCTTGATTCCTGTGCTTAAGAAACATGAACAAATAAATAGTTACCATCTCAAGAGGGCATAGAGAGGACTTGGCATGGGCAATGGAAAAGTCAACAACCTCCATAGAATGGGTAGTGGTGAAGTGCCCTGCAAGCTGAGTTACTCTGCTGTGTTTTTTTCAGCCTTGCTTGCTGGAGGAATACTGGATGTGAATTACCTTTGAGAAGTTCACTTTTGACTGGATGCGTCTTCTGCTGCCATTGAATATGCATAGTAATTTGGAATTTAACCTGGACTTAATTTAATGAAATCAAGTCGTCTCTGCCTCCCAGGTTACTCTTTACAAAGAGCCAAAGTAACGCAGCTCTTCTAGGTTACATAATACCAGGGAGAAAGGGCGCTTCTCACCTGTTCTCTAGAAGAGAGATGCAGTGCTCCTTCTTTGTAATGGTTTTATACCTGTTCCCACTCATGTATGCCAGACAAGGAATGGATTTTAACACAACTGAGGTAATGATGTTTGAGTTTGGTAAAGATCCAAGTGATATATCTTAAGTTTAAAAAAAAAAAAAAGGCTCTTTATACTTCTTTCAGGATGTGAAATCTTAGCTATTGTTTTTAATAATGTAAAGAAGCCACAATTTTGCACATGCTTTCTTTTCCTTTATTTTTGAAAATAAAGATACTATTCCTTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004689:ENSGALT00000007470:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.057
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=67.6)
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:
GGAGCAGGGGAAAAAGATGCA
R:
TTTCCATTGCCCATGCCAAGT
Band lengths:
346-953
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]