DreINT0085718 @ danRer10
Intron Retention
Gene
ENSDARG00000026489 | khsrp
Description
KH-type splicing regulatory protein [Source:ZFIN;Acc:ZDB-GENE-030131-4357]
Coordinates
chr1:54291692-54291936:-
Coord C1 exon
chr1:54291831-54291936
Coord A exon
chr1:54291746-54291830
Coord C2 exon
chr1:54291692-54291745
Length
85 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TTCTCGTGTTTTTCCTTCAGATC
3' ss Score
11.83
Exon sequences
Seq C1 exon
ATTGCAGCAAAGATCGGTGGTGACGTTACAGGTCCCCCAATGAGCAATAACGGCGGAGCGGAGAGTTATCCCTTCCCGACGCCGAAGCGATCGCTGGAGGATGGAG
Seq A exon
GTATGTCAACACCACACACAGTCTGCGTCTCTCCGTCTGACTCCTCTGAGTTTGTTTCTGAGCTGTTCTCGTGTTTTTCCTTCAG
Seq C2 exon
ATCAGCCTGAAAGCAAGAAGATGGCGTCTGACAGGGACAACGCTGCAGCTCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026489:ENSDART00000038330:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.981 A=NA C2=0.842
Domain overlap (PFAM):
C1:
PF044029=SIMPL=FE(44.9=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGCAGCAAAGATCGGTGGT
R:
CAGCGTTGTCCCTGTCAGAC
Band lengths:
151-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]