DreINT0085722 @ danRer10
Intron Retention
Gene
ENSDARG00000026489 | khsrp
Description
KH-type splicing regulatory protein [Source:ZFIN;Acc:ZDB-GENE-030131-4357]
Coordinates
chr1:54289741-54289973:-
Coord C1 exon
chr1:54289902-54289973
Coord A exon
chr1:54289799-54289901
Coord C2 exon
chr1:54289741-54289798
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCTCACTGTTTGTGTTTCAGACA
3' ss Score
10.7
Exon sequences
Seq C1 exon
TCATTGGTCGAGGTGGCGAGCAGATCAATAAGATCCAGCAGGACTCTGGTTGTAAAGTTCAGATCGCTCCAG
Seq A exon
GTGAGTCAAACTCTGCTTCAAATGAGTCGCTTTGCTCCACCTTTTTGTCTGTTTACTTAAATGTGCCAGACGTAACTTATTTTTCTCACTGTTTGTGTTTCAG
Seq C2 exon
ACAGTGGCGGTCTTCCAGACAGAAGTGTGTCCATCACAGGAGGCCCTGAAGCCATCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026489:ENSDART00000038330:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.640 A=NA C2=0.932
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(38.1=100)
A:
NA
C2:
PF0001324=KH_1=PD(32.1=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGGTCGAGGTGGCGAG
R:
AGGGCCTCCTGTGATGGAC
Band lengths:
118-221
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]