GgaINT0078822 @ galGal4
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
calpain-2 catalytic subunit precursor [Source:RefSeq peptide;Acc:NP_990411]
Coordinates
chr3:17034794-17035286:-
Coord C1 exon
chr3:17035168-17035286
Coord A exon
chr3:17034928-17035167
Coord C2 exon
chr3:17034794-17034927
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
GTATTTGCGTTCTCTCCCAGTTC
3' ss Score
8.45
Exon sequences
Seq C1 exon
GGGACTGCTGGCTCTTGGCAGCTATTGCCTCCCTCACTCTGAATGAAGAAATTCTGGCCCGTGTTGTTCCCAGAGACCAGAGCTTCCAGGATGAATATGCAGGAATCTTCCACTTCCAG
Seq A exon
GTCTGTGGAAATCTGGCTCTCACCTTCTCCTGAGTGCTGTTTGCTAGGAACCTGTGTGGTTGGCCATGTCTGTGTGTGAGACGTCTCTTGGAACGTCTTGGGGGACATCAAAAAAACAGGCTGAAATCCAAGGAGAGTGATGGTGATGGAGGGAAGAAGGCCAATGACCAAAGAGCCAGGAGCAGGGGCTCTCTGTTGGTGGATATGGGCCAATGATGGGGTATTTGCGTTCTCTCCCAG
Seq C2 exon
TTCTGGCAGTACGGAGAGTGGGTGGACGTCGTGGTGGATGACCGGCTGCCCACCAAGAACGGGGAGCTGCTCTTCGTGCACTCGGCAGAGGGCAGCGAGTTCTGGAGCGCACTGCTGGAGAAGGCCTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015245:3
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(13.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.7=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:
GGACTGCTGGCTCTTGGC
R:
CGTAGGCCTTCTCCAGCAGT
Band lengths:
248-488
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]