GgaINT0087007 @ galGal4
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr3:39824048-39824482:+
Coord C1 exon
chr3:39824048-39824131
Coord A exon
chr3:39824132-39824396
Coord C2 exon
chr3:39824397-39824482
Length
265 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
TCTGCTTCCTTCTACTGCAGGTG
3' ss Score
11.65
Exon sequences
Seq C1 exon
ACCAGCAGTGCTGCAGAGTCAGAAGCCAGGACACCCTTTGGCCTCATAAAAGGCCATGCTTACTCTGTAACCGGCATTGATGAG
Seq A exon
GTACGTTCCCTCTGACTTGTGTCAGCAGTGCAGGGCAAGGAGAAGTTTGGTCAAAAGACAAAGGAGTGCCTACTACCCTTAAGAGATGGGATGAATTGTCCTGGGGGAATTATCCAAACTCCCATCCATCTTTCCCTCCCACGTCTCCTGTAGCAGTGCATCTTTGGCCTGGCTGTTACACAACTTGTCCAGTCAATGCACGCTGGAGAAGACCTGCTTCCTAGCTAATGACACTCAATATTTTCTCTGCTTCCTTCTACTGCAG
Seq C2 exon
GTGAGCTATCAGGGCCAGAAAGTGCAGCTCATAAGAATAAGGAACCCCTGGGGACAAGTGGAGTGGAACGGGCCTTGGAGTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:6
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(9.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.5=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:
CAGTGCTGCAGAGTCAGAAGC
R:
TTGTCACTCCAAGGCCCGTTC
Band lengths:
165-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]