RnoINT0078731 @ rn6
Intron Retention
Gene
ENSRNOG00000047628 | Khsrp
Description
KH-type splicing regulatory protein [Source:RGD Symbol;Acc:621828]
Coordinates
chr9:10019631-10019919:+
Coord C1 exon
chr9:10019631-10019729
Coord A exon
chr9:10019730-10019816
Coord C2 exon
chr9:10019817-10019919
Length
87 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TGTGCCTCCTGGCCTCCCAGGTG
3' ss Score
10.01
Exon sequences
Seq C1 exon
CAAGCCTGTGAGATGGTGATGGACATCCTGCGAGAACGTGACCAGGGTGGCTTTGGGGACCGCAATGAATACGGATCTCGGGTTGGCGGAGGCATCGAT
Seq A exon
GTGAGTGCAAGCACTCCAGGGAATGGGCAGCTGGGAGCAGGGCAGAGGTAGGGGCACACCAGGTGACTGTGCCTCCTGGCCTCCCAG
Seq C2 exon
GTGCCTGTACCCCGGCATTCGGTTGGTGTGGTCATTGGCCGGAGTGGAGAGATGATCAAGAAGATCCAGAATGATGCTGGTGTGCGCATCCAGTTCAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047628:ENSRNOT00000072033:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.343
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=15.2),PF0001324=KH_1=PU(3.2=6.1)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTGTGAGATGGTGATGGA
R:
GCACACCAGCATCATTCTGGA
Band lengths:
182-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]