RnoINT0112250 @ rn6
Intron Retention
Gene
ENSRNOG00000004131 | Pkn1
Description
protein kinase N1 [Source:RGD Symbol;Acc:69308]
Coordinates
chr19:24803524-24804242:-
Coord C1 exon
chr19:24804162-24804242
Coord A exon
chr19:24803800-24804161
Coord C2 exon
chr19:24803524-24803799
Length
362 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TCTTTGTCCTCTCTCCACAGACT
3' ss Score
13.01
Exon sequences
Seq C1 exon
CTACTGCGGAGGAACCCAGAGCGGAGGTTGGGATCCACTGAGCGTGATGCAGAAGATGTGAAAAAACAGCCTTTCTTCAGG
Seq A exon
GTGAGCAGACCCCTCTACATTCTCTCAGCCACCCCAAGGACCTGAATATTCTTCCCAGTTCATTCCCACCCCAAATCTAGTAGCTGTATCTTAAAGAGTTTTGTTGCCCTGCCCCAACCCTCCAGCCGTCATGATCCCTCTCAAATGTTATCTCGGTTTGTCTGCACCCTTCCTTACCCTTAATCATCACTACCACTGCTTCTCCAGGCCCATGTTGTCATTACAGGACTTACCCTGGACCACCCCAGACGCCCTTTCTCTGAGTTCCCAGCCCCTCTGCATCTTCAGCTTCCTGATGATCTCCAGACTTCCGTTCATACTGCTCAACCTCCATCTTGACTCTCTTTGTCCTCTCTCCACAG
Seq C2 exon
ACTCTGGACTGGGATGCCCTGCTGGCCCGTCGCCTGCCTCCACCCTTCGTGCCTACACTTTCGGGGCGCACAGACGTCAGCAACTTCGATGAGGAGTTCACTGGGGAGGCCCCCACACTGAGCCCTCCCCGGGATGCACGGCCCCTGACAGCTGCGGAGCAGGCGGCCTTCCGGGATTTCGACTTTGTGGCAGGAGGCTATTAGCCCTAAGCCCCTGCCTTGCCCAAGAGTTCTTGGTTTTTAAAAAAGCCTTTGGGGTTTACTCCATACATGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004131:ENSRNOT00000005770:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=69.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACTGCGGAGGAACCCAGAG
R:
TGGAGTAAACCCCAAAGGCTT
Band lengths:
348-710
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]