DreINT0041267 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53238272-53238651:-
Coord C1 exon
chr1:53238518-53238651
Coord A exon
chr1:53238441-53238517
Coord C2 exon
chr1:53238272-53238440
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGC
5' ss Score
5.38
3' ss Seq
AACTTTATTTTTGTTCTCAGGCT
3' ss Score
8.34
Exon sequences
Seq C1 exon
TTCTGGCAGCATAACAAATGGATGGATGTGGTGGTGGACGACAGGCTCCCGTGTGTGAGAGACAAACTGGTGTTCCTCCACTCCGCTGACAACAACGAGTTCTGGAGTGCACTGCTGGAAAAGGCCTATGCCAA
Seq A exon
GTATGCTCTTCAGTTTACAAAATGGGATCCGGCTATCATATTTAGATTTGAGATGTTAACTTTATTTTTGTTCTCAG
Seq C2 exon
GCTGAACGGCAGCTATGAAGCCCTGAAAGGTGGAAGCACAATGGAGGCCATGGAGGACTTTACTGGAGGTGTGGGTGAGATGTACGAGACGAAAAACGGACCCAACAACCTCTTCCTCATCCTCAAGAAAGCCATAGAGAGGGGGTCCATGCTTGGCTGCTCCATCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(14.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.9=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:
ACTGCTGGAAAAGGCCTATGC
R:
GGACCCCCTCTCTATGGCTTT
Band lengths:
172-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]