DreINT0041259 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53229438-53229663:-
Coord C1 exon
chr1:53229606-53229663
Coord A exon
chr1:53229503-53229605
Coord C2 exon
chr1:53229438-53229502
Length
103 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTAACTGTGTCTCTCTGCAGGGA
3' ss Score
11.9
Exon sequences
Seq C1 exon
GATAATGTCATCAGCGCCAGAGAACTGCAGCACGTGCTGAACAATGTTCTGGGAAGAA
Seq A exon
GTGAGTCTGACACAAATATTAATCAACTTTGAAACTTAATTTCCGAATGAGTGCTAAATATGAATGCTAGCATGTTAAGTAGGCTAACTGTGTCTCTCTGCAG
Seq C2 exon
GGAAAGAAGTGAAGTTTGATGGTCTGAGCCTCAACACCTGCATCAGCATCATAAACCTGATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:14
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=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=FE(31.1=100)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=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:
GATAATGTCATCAGCGCCAGAGA
R:
TGCTGATGCAGGTGTTGAGG
Band lengths:
106-209
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]