RnoINT0029008 @ rn6
Intron Retention
Gene
ENSRNOG00000032375 | Capn13
Description
calpain 13 [Source:RGD Symbol;Acc:1562682]
Coordinates
chr6:24600221-24600705:-
Coord C1 exon
chr6:24600669-24600705
Coord A exon
chr6:24600278-24600668
Coord C2 exon
chr6:24600221-24600277
Length
391 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CTCTTTTCCTTTTGATCCAGGGA
3' ss Score
9.24
Exon sequences
Seq C1 exon
GAATCCAAACAGCAGTTTCAACCTCAAAGCCCTCAAG
Seq A exon
GTAGGTGTGCGGGTCTTGCTTGCTGTCTTTACTACCTACATTGCATCCCCCAAGAGCTTCTTTCTCCTTCCTGGTCTTGCTATGGCCAGGGAAAATAGAGACAACCTGATATGGTATTTATAGCTCTAAGAGGTGGGGCAGAAGAGAATTCCAATCCTCCAAGATCAGACTGGACCCAAGTATCTTCCTTCTAACAAACTTTTGTTTTCAAACCCCCTTAAATTTGATTTCCTTTACCTCACCCCTGCGACTACCAGGTGAATCTCCTGTCTTAGATTCAGGCAGGCTGATTGCTTCCTTCAGTCAGTCCAACTCTTACTAAAGCAAGGTTGTACCGGATGAGTGACCTCTTTCCCAGAAATTTAATGTAACTCTTTTCCTTTTGATCCAG
Seq C2 exon
GGAAGTCTTTCAGAAAACGAATCCCCAAAAAGCAGTTTCCACAGATATATGGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032375:ENSRNOT00000047853:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.053
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(13.2=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]