GgaINT0087015 @ galGal4
Intron Retention
Gene
ENSGALG00000011136 | CAPN9
Description
calpain 9 [Source:HGNC Symbol;Acc:HGNC:1486]
Coordinates
chr3:39835321-39835994:+
Coord C1 exon
chr3:39835321-39835378
Coord A exon
chr3:39835379-39835929
Coord C2 exon
chr3:39835930-39835994
Length
551 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTATTATTGTCCTTTTTCAGCAA
3' ss Score
10.22
Exon sequences
Seq C1 exon
GACATGGAAGTAGCTGCAGAAGAACTTGAATATGTTCTAAATGCAGTATTAAAAAACA
Seq A exon
GTAAGTACTGATAATCTCTGTAGTTGCTCAGTGGCATGCAGTTAAGAGCCATAAAGAACTTTATAAAAGCTGCTCTTAAGCTCCCTTACAGATGGAAAAATAAAGGCTGTGTTACTAATCTTGCATGGTGTCCTCCAGCCAGGGCAGAGCCAGAAAAACATCTAGTCTGTGATCTAACCACTTGATTGCCTGCCTCCAGCATGATCCATGTCAGTTCAATGAGGCTAGTTCTACACTGCGCTGCTGCTCTGCTCTAGGGAGACTGGGAGTGGGACTAGTAAGACCTGGACATAGTTCATGGTGCTGCTATAGGCCCTTTGTATAACAAGAAACAAAGAAAATACTTCCTTTCATGTCTTCAGTTCATACCTTCTCTGTCTGGATTGTGATTTTCATACAGTGTGGGCTGTCTTCGTGTTCCAGTGCATGAGTCCTTCCACAGTGAGGCCTAAGAGCCCGCTATCAGTGCTTACGAAATCCTGTTTTCTATTATGGAATTATAAAAGGCAGATTTGCCCAATGATTTCTTTCTTATTATTGTCCTTTTTCAG
Seq C2 exon
CAAAGGATATCAAATTCAAGAAGTTAAGTCTCATTTCATGCCGAAACATCATTTCTCTTATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011136:ENSGALT00000018152:14
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:
NO
A:
NA
C2:
PF0003627=EF-hand_1=PU(31.0=40.9)
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]