GgaINT0078824 @ galGal4
Intron Retention
Gene
ENSGALG00000009360 | CAPN2
Description
calpain-2 catalytic subunit precursor [Source:RefSeq peptide;Acc:NP_990411]
Coordinates
chr3:17032261-17033969:-
Coord C1 exon
chr3:17033801-17033969
Coord A exon
chr3:17032345-17033800
Coord C2 exon
chr3:17032261-17032344
Length
1456 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TAGCTCCTTTGCTCTTACAGATC
3' ss Score
9.77
Exon sequences
Seq C1 exon
GCTGAATGGATCATACGAGGCTCTCTCTGGTGGCACCACCACTGAAGGCTTTGAGGACTTCACTGGTGGGATTGCAGAATGGTATGAGTTGCAGAAGGCACCACCCAACCTCTTCAAAATCATTCAGAAAGCACTGCAGAAAGGCTCTCTCCTTGGCTGCTCCATCGAT
Seq A exon
GTGAGTTGGTGCTTACTGCTGGATGCTTGGCTCTTGCTCTGCACGTGGGCACATGGGAGGTGGACCTGTGCTCCATCTGCGGGAGGTGCACAGGGGATGCTTCCCTCTGCCTCTTGAAGATCAGTTCTCTGCTCTTCCTTCTGCCTGGAGAATTTGACCCAGGAGCGTGACACAGCAATAGGGAATAGGCTGAAACATAGATCTAATTAGTTCATGTGTTAGAGCTCACTGCTTCAGTTATTTTTCTTCCTTGAGACCCAGGAGTTGGACTCAATGGTCCTCGTGAGTCCCTTCCAACTTCAGGGTATGAAAATCTCTGCTGTTTCATAGGCTCACAGTGAAGGATCACATGGGTAACTCATTAGGGATCCCAGTGTACATCTTTGTTCTTCAGAAAGTCTGTGGCTTGGCAGCAGATTGTCACAGGCTAAGTGGCTACAGGCAGAGAGCTGCTGCTAATGGTTCCTCCATCGTGTGCTCAGTCATAGCAGTCTCTATCCAGTTTGCTGTCCAGGTTGTACCAAAAGGTTCCAAAAAAAAAACAAACCCAGAAGCAAAAACAACTGGGATACATTGTCCAATCAGGGAGGCTGTTGTTGGTCATTTTAAAGGCTTTATCAGAAAACACATTGCCAAAATCTAAATCTGTGCTATAAAAAAAAGAGGAGCATTTTGTCTCTGACTACAGCAATTCAGCATTGCTTTTAGCCTCACTGAAATGAATGTGAGTGTCATTACTATGATAGCCAACATACTCCCAAAGGAGATTAGATCTTAGTTGTGTCTAAGGAGAAGGTAAATTGTTGACAAGAACTGCATTCATAATTTAAACTCAAGTGTTTCCTCCCATTTTTTTGTTTTAAATCCCAGTCACAGGAGAGGGAAGTTTCACAGCAGGAAGAATACCTTGTTAATATTAACATGCAACTCCACAGCACTTTCCAGGCTTGTTCTAGTCTGCATTTAGATAAGAATCTGATATCTGGATTTTTGTTCCGGAGTGATACAAACCTCTTGTTGGGGGTGGGGGAAAGTAAATATGTTCCTTTGTTGGTGAGTACTTTATACATTGCAAAGCCATTATTAGTGAGTTTGGTCTTTGAAAAATCCTGTAGACTCTTTTCTTCTTGTCTGTCAGAGAAATAGGGGAACAGAAGTTAAGCATTATAATGCCCGGTAGTAACGATGGGGCATGAAATGGCGGCAGGAATTCTGTCTGCTTGATCCCACCACCTTCTTTTTCTTTACTTTTTTTCCTCTGTGCTTCAAGTATGCTTGTTTGACGATCACATACCTTCTGAAAAGGAGGACAGAGAGTGACAAACATGTTTAATGGAGGTTGAAGAAGCTTTAAATCAAGATGTCAAGCAGCCGCTTTCTTGCGAGAGGTGATTTTCCTTGCGGTACTCATAGGTCAGACTATTCAAGTGTTGTAATAGCTCCTTTGCTCTTACAG
Seq C2 exon
ATCACCAGTGCAGCTGAGACAGAGGCAGTCACGTCGCAGAAGCTGGTGAAGGGACACGCGTACTCCGTCACCGGGGCAGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009360:ENSGALT00000015245:5
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=0.054
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(18.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(11.2=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:
GCTGAATGGATCATACGAGGCT
R:
CTCCTCTGCCCCGGTGAC
Band lengths:
253-1709
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]