GgaINT0087014 @ galGal4
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr3:39834713-39835378:+
Coord C1 exon
chr3:39834713-39834793
Coord A exon
chr3:39834794-39835320
Coord C2 exon
chr3:39835321-39835378
Length
527 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTTTTTTTTCTAACTTCAGGAC
3' ss Score
10.39
Exon sequences
Seq C1 exon
CCTCCAAACCCAACCCCAAGTCCACAAGAATCTGAGGAAGAAAAGCAGTTCCGGGCACTGTTTGAGCAGATCTCAGGAAAG
Seq A exon
GTGAGTGCAAAATTTTTGTGTGTCATGGCAACATGTAGAAAGGAGGAGAGAGTTCTGCTCTCTCCCGGGGCTAAGTGAGGCAAAAACGTTGCATTTTGGAGGCAGTGTGCTTAGCTGTAATGTGGCATTTAGGCACCAGATGTCACCATGCCTTATACTTGGAGAAGGACGCAGTTCCTACGAAGCAAACAGGAGGTTCAGAACTAGAACTCAAGCCCTGAGGGAGCCTACCTGCCTCAGTGTCCAGCTGCATTTTTCTTCCTCTTTGAGTCAATGGTTCTGTCTTGAGATTGCTTGCAGACAGCCTCATGAACAGTAGCACTTCTGTATTTTGCTAGCTCTTTGATTTTTAGCCTTTTCTGGGTTTTGCATGATCCTCTTTTCCTGAGGTGCAATAAAGTGCAGATAAATAGGATGGTATTTACTGAAGTTTTTGATATGTCTTATTCTAGAAACACTCAAGCAACAGATGCTTCTTTCTTTTTTTGTCTTTATTTCTTTTTCTTTTTTTTTTTTTCTAACTTCAG
Seq C2 exon
GACATGGAAGTAGCTGCAGAAGAACTTGAATATGTTCTAAATGCAGTATTAAAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.519 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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]