GgaINT0081351 @ galGal4
Intron Retention
Gene
ENSGALG00000009382 | CAPN8
Description
calpain 8 [Source:HGNC Symbol;Acc:HGNC:1485]
Coordinates
chr3:17057180-17058244:+
Coord C1 exon
chr3:17057180-17057348
Coord A exon
chr3:17057349-17058160
Coord C2 exon
chr3:17058161-17058244
Length
812 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGA
5' ss Score
5.46
3' ss Seq
GTATATTTTTCTTGCCTCAGATA
3' ss Score
7.72
Exon sequences
Seq C1 exon
GCTGAATGGTTCTTATGAAGCTCTAGCTGGAGGGTCCACTATAGAGGGGTTTGAGGATTTTACTGGAGGCATCTCTGAATCCTATGACCTGCGGAGGGCTCCAGCAAACCTGTTCCAAATTGTCCAGAAGGCTCTGAGGGCTGGCTCACTGCTCGGCTGTTCCATTGAT
Seq A exon
GTAAGAGGCTGCCACTACTTTACTTTCCTCACTCCTCCAGGCTTTTGTCAATATCATACTTGGATTCATGTAGGCATAGGTGTGAAGGTCTGGATTAAAAGCAAACTACAGTCGGTGTGAGACTTTTATTGATTTCAGTTATAAAAATGTTGGACAAGGCTCTAAATAACCAGTTCTCTTTTCACAAGACAGCCTGTTAAAATGCTTAGAGCCATGAGCTTGGGACAGGTCTTCCTGAACCCCATTCTCATTCTCTCAGTATCTTTCGTCATTCAAATGATGTGTAATGTCAGCTCCAGACACTGAACTGTTAGACACAAACAATTTGAGGTACTTTGCTGTAGACTGTACTCTGATTTTGGCTTTGTTTTTCAATTAAAAAAATCATTAACACTTATCAAACAAGATCTTCTATGTTATTGACAGGTCTGTATATGTTTTGGAAACTCCATACCTTTCACATCCTGTCTTATAATCTCATTTCAAATCCTAGTTCAACCAAGGCAGGTTGGAGCAGAGTTGACTTGAATACATCTCTGTAGGTGACTGGGTTTGTCACCTGAGCTGGGAATTAGCTCTAGATCTAGGCTCCTTGAGTCTCTGCAGTGCTAGGACTGTGTATTCAAGGCAGGAAGCTCTGGAGGTGAACTCTTGCCACAGTTCCTACCTTTATTTAGTATACTTTGCATTGGGAATGTTGATAGTCATTGTGCATTATCACCTTGGATGTCTTCTCCCGTATTAATCTGCTCATGAAAGCTGTGTCTATACACAATATGTAGCCCTAAGTTGGTATATTTTTCTTGCCTCAG
Seq C2 exon
ATAACTCGTGCATCTGAAACAGAAGCAATCACGAGTCTGAAGCTTGTGAAAGGACATGCTTATTCTGTCACTGGGGCAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009382:ENSGALT00000015288:5
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=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(20.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(10.0=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:
CTCTAGCTGGAGGGTCCACTA
R:
TCTTCTGCCCCAGTGACAGAA
Band lengths:
232-1044
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]