RnoINT0029130 @ rn6
Intron Retention
Gene
ENSRNOG00000003468 | Capn8
Description
calpain 8 [Source:RGD Symbol;Acc:620085]
Coordinates
chr13:101018063-101019009:+
Coord C1 exon
chr13:101018063-101018137
Coord A exon
chr13:101018138-101018848
Coord C2 exon
chr13:101018849-101019009
Length
711 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CTGGTTCCTTTGTTCTTCAGGAT
3' ss Score
10.18
Exon sequences
Seq C1 exon
TGCACCTGAGTGGAATTACATAGATCCAAGGAGGAAGGAGGAGCTGGACAAGAAAGCAGAAGATGGCGAGTTCTG
Seq A exon
GTGAGAAGCCGTGCCCAAGGGCCCTTAGTGGCAGGGTCTGTTCCAAAGTATATGAAAGGTCCTGTCTCTGGGACTTGCAGGAATGTGACAGCATCCCTCACTCGGGGGCTTTTGTTTTCTCTTCCCCTTCCTCTGATATGAGTCTACCTCCGTTCTTATGTCTAAAGCATTGGAACCCAGGTCTCTGTGCCCACAACAAGGCCTGGCCAGCAGCCTGTCTGCCTGTTGTGAGCCTAAAACAAGCCCCCTTCCTCCAAGTTCTAAGGCCTAGCTTATAATAAAAACAGGATTCTTTCCTTTCCTGGGCCATTAGGGGGGTCTCTTGGAAGATGGAATGTCTTAGAGGAAATCTCCACACTAGATATCGTGGAGAATTCCTCAGAAGTGGGCCTTTGGTGGGCTTAGCTGTGACCCAGCCTAGAGGTCAGAGCTTCGTTCACACCCCCGCTCCTGGAGGAGGCGAGGGGTCCTCTGGTTCAAGGTTCCAATTCCGTGTGGCTGGTAGATACACAGAGGCAGATTCTCTAGGAATTCAGACACTGATCACAGTAACAAATCTGTACGGTAGCTCTGCTTCTCTGCATAACTGGGATGTAGAAAGAAACTCGGGCAGTCCACGCGGCCGGAAGACAGAGCTCTCTCCTGGGCCTCGAATCTCTCTCCCAGTCCAGCCCATCTTACTCTCTCCCTTCTGGTTCCTTTGTTCTTCAG
Seq C2 exon
GATGTCCTTTTCGGATTTCTTGAAGCAGTACTCCCGACTGGAGATCTGCAACCTGTCCCCAGACTCTCTGAGCAGTGAAGAGATACACAAATGGAACCTAGTACTCTTCAACGGCCGCTGGACACGGGGTTCTACAGCCGGGGGCTGCCTGAACTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003468:ENSRNOT00000004649:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(92.3=43.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCACCTGAGTGGAATTACAT
R:
CTGGGTAGTTCAGGCAGCCC
Band lengths:
236-947
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]