RnoINT0078732 @ rn6
Intron Retention
Gene
ENSRNOG00000047628 | Khsrp
Description
KH-type splicing regulatory protein [Source:RGD Symbol;Acc:621828]
Coordinates
chr9:10019817-10020457:+
Coord C1 exon
chr9:10019817-10019919
Coord A exon
chr9:10019920-10020211
Coord C2 exon
chr9:10020212-10020457
Length
292 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTATCTGTTCTTGGTTTTAGATG
3' ss Score
9.91
Exon sequences
Seq C1 exon
GTGCCTGTACCCCGGCATTCGGTTGGTGTGGTCATTGGCCGGAGTGGAGAGATGATCAAGAAGATCCAGAATGATGCTGGTGTGCGCATCCAGTTCAAGCAAG
Seq A exon
GTGAGGGAGGAGTGCCCAGGTGCTGGTGCTACCCCCACCTCTTGCAGGCCCTCAGTGCCTGCAGAGGTTTGGTGCCTAGATCCTGTCAGTTGTTTTTCTGGAACCAGTCTCTAAGATTGCTTAGTTCTGTGGACCTTGAAGGTGGGAGGATGCTCAAGCTGTTAACTCTGAGTAGATAGATGTGTTCTGAGGAATAGGACTTCTGCTTGTTCACATGGAGGCAGCAAATCAGAGTTGCTGATCTCTCGGGGTACTTGGCTTTTCTTTGAGTAGTATCTGTTCTTGGTTTTAG
Seq C2 exon
ATGACGGGACCGGCCCTGAGAAGATTGCTCACATCATGGGGCCTCCAGATCGGTGTGAGCATGCAGCCCGGATCATCAATGACCTCCTCCAGAGTCTTCGGAGTGGGCCCCCAGGTCCTCCAGGGGCCCCTGGCATGCCCCCTGGAGGCCGGGGCCGGGGCCGAGGCCAAGGCAACTGGGGCCCTCCTGGAGGGGAGATGACTTTCTCCATTCCTACCCATAAATGTGGGCTGGTCATTGGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047628:ENSRNOT00000072033:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.343 A=NA C2=0.807
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=30.1),PF0001324=KH_1=PU(25.8=20.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGGAGTGGAGAGATGATCA
R:
GCCAATGACCAGCCCACATTT
Band lengths:
308-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]