GgaINT0054918 @ galGal4
Intron Retention
Gene
ENSGALG00000009050 | CAPN3
Description
calpain-3 [Source:RefSeq peptide;Acc:NP_001004405]
Coordinates
chr5:24948626-24949232:+
Coord C1 exon
chr5:24948626-24948709
Coord A exon
chr5:24948710-24949146
Coord C2 exon
chr5:24949147-24949232
Length
437 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTGCCTTCTCTTTCAATTAGACA
3' ss Score
7.47
Exon sequences
Seq C1 exon
ACCATAATGCCAATGCAGTATGAAACCCGGATGTCTTGTGGGCTGGTCAAAGGTCACGCATACTCTGTCACAGCTGTGGAAGAG
Seq A exon
GTGAGTACAGTCTTTTGCCTACTGCTGTGGGGTCCTTTGGTCTAGACTGGCCCAGCATCAAGCATGGCAGCAGAGCTGTGTACAGGGGGACAAAGAGGGGGAGAAAAAAAGATACAAATTATGAAATAAAGGAAAGAAATTTTGTTTTCAATTAAAGTACAGCTTCATGGAGAAACCAGTCAGTCCAAAGTTTGGCTTTCTGTGTGAATGGATGTTCCTCCATGATCTGCATGGGCAAAGGTAGCCACAGCCGGCCACCTCTTGGTCTTACTGCCTTTCTACACTCACTCAGGGCAGGTCAGGCTGAGTGATGGCCCTGGAGAGCACTGTCACTTGGGGAGATGGTATCAGGGATGTGACAGACAGAACTTTTCCTTTCTAAGCCTATTTCTCACGAAATAATTCAGTTGATTCTTCTTGCCTTCTCTTTCAATTAG
Seq C2 exon
ACAACATATAAAGGGGAAAAGATGCGTCTGGTAAGGCTGAGAAACCCGTGGGGACAGGTGGAATGGAATGGACCTTGGAGTGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009050:ENSGALT00000032636:7
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:
PF0064816=Peptidase_C2=FE(7.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.2=100)
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:
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]