DreINT0085710 @ danRer10
Intron Retention
Gene
ENSDARG00000026489 | khsrp
Description
KH-type splicing regulatory protein [Source:ZFIN;Acc:ZDB-GENE-030131-4357]
Coordinates
chr1:54288082-54288396:-
Coord C1 exon
chr1:54288262-54288396
Coord A exon
chr1:54288185-54288261
Coord C2 exon
chr1:54288082-54288184
Length
77 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
GTCTTGTTCTGATTGGACAGGTT
3' ss Score
6.86
Exon sequences
Seq C1 exon
CAAGCCCGTGAGATGGTGCAGGAGATTCTGCGAGAGCGGGATCATCCGGGCTTCGAGAGGAATGAGTATGGCTCTCGAATGGGTGGTGGAGGAGGTGGAGGCGGCGGTGGTGGAGGTGGCGGCGGTGGAATTGAG
Seq A exon
GTGTGTATTTAATTGGTCAATCATTATCAATTGGCTAACATGCTGCAGTGTGACATTGTCTTGTTCTGATTGGACAG
Seq C2 exon
GTTCCAGTTCCACGTCACTCTGTGGGTGTCGTGATTGGCCGAAGCGGAGAGATGATCAAGAAGATTCAGAATGACGCCGGCGTGAGGATACAGTTCAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026489:ENSDART00000038330:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.956 A=NA C2=0.829
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=11.1),PF0001324=KH_1=PU(3.2=4.4)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGGCTCTCGAATGGGTGGT
R:
TTGAACTGTATCCTCACGCCG
Band lengths:
167-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]