GgaINT0078833 @ galGal4
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
calpain-2 catalytic subunit precursor [Source:RefSeq peptide;Acc:NP_990411]
Coordinates
chr3:17025836-17026200:-
Coord C1 exon
chr3:17026135-17026200
Coord A exon
chr3:17025894-17026134
Coord C2 exon
chr3:17025836-17025893
Length
241 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
TATCTTCCTCTTTTCTGCAGGAT
3' ss Score
11.67
Exon sequences
Seq C1 exon
ACTGAGATCGATGAAGATGACATTGAACCTAGCTTCAAAAAGCTTTTTGGGCAGTTGGCAGGAAGC
Seq A exon
GTGAGTATTTCATTGTTATGTCTTACTGGTAGCATTGGTGAGTGTAAAGAGGAACAGCTCCCAGTCACTGGTGCCAGTGGATCCAGATGGCCAAATGGGCTTCGTGGTGAGGGCACACCCACATCAGACAGAAACTCTGAGGGATGCTGATCTTGACCATCAATCCCAAAGGATTACGAGGCTGCTTATGAGATGGTGCCTGTGTCTCCCAGCGAAGAACTTATCTTCCTCTTTTCTGCAG
Seq C2 exon
GATGCAGAGATCTCTGCCTTCGAGCTGCGCAACATCCTGAATAAAATCCTGGCTAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015245:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=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]