GgaINT0054933 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24960548-24960748:+
Coord C1 exon
chr5:24960548-24960606
Coord A exon
chr5:24960607-24960721
Coord C2 exon
chr5:24960722-24960748
Length
115 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
TAATTCCTTCTCTTCCTCAGTGG
3' ss Score
6.83
Exon sequences
Seq C1 exon
GGGCATTCCATGCCTTTGATAAAGATGGAGATGGAATCATAAAGCTCAACGTCCTGGAG
Seq A exon
GTAAACTGCTTTATGCCAGTATTTTTAACACAACACCCCAATACCACGTTATTAATTCCCAGCACTGTCTCACACATTCAAGTTGGCCTGATCTTTAATTCCTTCTCTTCCTCAG
Seq C2 exon
TGGCTGCAGCTCACCATGTACGCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CATTCCATGCCTTTGATAAAGATGGA
R:
TTAGGCGTACATGGTGAGCTG
Band lengths:
83-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]