RnoINT0078738 @ rn6
Intron Retention
Gene
ENSRNOG00000047628 | Khsrp
Description
KH-type splicing regulatory protein [Source:RGD Symbol;Acc:621828]
Coordinates
chr9:10021560-10021882:+
Coord C1 exon
chr9:10021560-10021637
Coord A exon
chr9:10021638-10021721
Coord C2 exon
chr9:10021722-10021882
Length
84 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TATCCTCTCTGTGCCCACAGCAC
3' ss Score
10.85
Exon sequences
Seq C1 exon
GCCAGCAGCCCCAGCAGCCTGGGGCGCCCCCACAGCAGGATTACACCAAGGCCTGGGAGGAGTACTACAAGAAGCAAG
Seq A exon
GTAAGCTGCTGGGTGGGGACAGGTGGGGATCCTGGCTGGGGAGGTCCTTCTGACAGCCACTCATTATCCTCTCTGTGCCCACAG
Seq C2 exon
CACAAGTGGCCACTGGTGGGGGTCCTGGAGCACCCCCTGGCTCCCAGCCTGACTACAGTGCCGCCTGGGCTGAGTATTACAGACAGCAGGCTGCTTACTACGGACAGACCCCAGGCCCTGGTGGCCCACAGCCACCTCCCACCCAGCAGGGACAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047628:ENSRNOT00000072033:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.858
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(18.5=18.5)
A:
NA
C2:
PF090055=DUF1897=WD(100=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCACAGCAGGATTACAC
R:
CCTGGGGTCTGTCCGTAGTAA
Band lengths:
167-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]