RnoINT0078743 @ rn6
Intron Retention
Gene
ENSRNOG00000047628 | Khsrp
Description
KH-type splicing regulatory protein [Source:RGD Symbol;Acc:621828]
Coordinates
chr9:10017808-10018083:+
Coord C1 exon
chr9:10017808-10017857
Coord A exon
chr9:10017858-10018011
Coord C2 exon
chr9:10018012-10018083
Length
154 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
CTTTCTTTTCTTTCATCCAGTCA
3' ss Score
9.22
Exon sequences
Seq C1 exon
GACCTCAATGACAGAAGAGTATAGGGTTCCGGACGGCATGGTGGGCTTGA
Seq A exon
GTGAGTGTGGGTTTCCTTGATGAGGGTGGAGACCTGAGAGCCCCGGCTGCCTCTGGCCAAGGGATTTCTGTGTGATAGTGTCCAAGGGACAACTGGTGGGGGCCTTGGTCTGTGTGTCCTTACTTAGCCTTCACCTTTCTTTTCTTTCATCCAG
Seq C2 exon
TCATTGGCAGAGGTGGTGAGCAGATAAACAAAATCCAGCAGGACTCAGGCTGCAAAGTTCAGATCTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047628:ENSRNOT00000072033:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(20.6=72.2)
A:
NA
C2:
PF0001324=KH_1=FE(38.1=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:
GACCTCAATGACAGAAGAGTATAGGG
R:
CTGGTGAGATCTGAACTTTGCA
Band lengths:
122-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]