GgaINT0078832 @ galGal4
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
calpain-2 catalytic subunit precursor [Source:RefSeq peptide;Acc:NP_990411]
Coordinates
chr3:17026135-17026334:-
Coord C1 exon
chr3:17026298-17026334
Coord A exon
chr3:17026201-17026297
Coord C2 exon
chr3:17026135-17026200
Length
97 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TTTCTCTCTCTCTCTTCTAGACT
3' ss Score
12.89
Exon sequences
Seq C1 exon
GGTTATAGATGATGAAATAGAGGCCAATTTTGAAGAG
Seq A exon
GTATGTTATAAATATTTTAAACTTTCTCACATTAAGTCCTTCTCAGGCAGAAAAGTTCCTCCTTTCCATATTCTGTATTTCTCTCTCTCTCTTCTAG
Seq C2 exon
ACTGAGATCGATGAAGATGACATTGAACCTAGCTTCAAAAAGCTTTTTGGGCAGTTGGCAGGAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015245:13
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=0.045
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTATAGATGATGAAATAGAGGCCA
R:
GCTTCCTGCCAACTGCCC
Band lengths:
103-200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]