RnoINT0028966 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17746327-17746969:+
Coord C1 exon
chr9:17746327-17746538
Coord A exon
chr9:17746539-17746929
Coord C2 exon
chr9:17746930-17746969
Length
391 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
TTTCACTCTCTTATGCCCAGGTT
3' ss Score
7.11
Exon sequences
Seq C1 exon
TTTCAGAACCTCCAGGACATCCACCTGAAGAAAGACTTCTTTATGAAATATCGGGACCATGGCTTTTCAGAGATCTTCACCAACACGAGGGAGGTGAACAGCCATCTTCGGCTGCCCCCCGGGGAGTACGTCATTATCCCCTCCACCTTTGAGCCTCATAAAGATGCTGACTTCCTGCTTCGAGTCTTCACAGAGAAACACAGTGAGACCTG
Seq A exon
GTGAGGGGCCAGCCTCGCTCCGGCGAGGTTCCGCGCTCCGGCGAGGTTCCGCGCTCCCAAGGGGATACAGGGTGTCAGATTCTGGTCCTCCTTCACATCAACCTTATGTTATGTCATGGAAACTGAGGCATGACGATATGAGGTCTAAATATGTGAGCTACCATATGTTTCCTGGGAATTGAACTCTGGACCTCTGGGAGAGTAGTCAGTGGTCTTAACCACTGAGACATCTCTCCAGCCCCTCTAAATTAGTAGTAGAAATAGGAATGAAACCAGGGCCCAGATTTAATGTATTATTAGATACTGCTCCACATACAATGACAGGACCCTCCCCAGATCACCTTAAGTCTCTGACCTCGTTACCCCTAAGCTTTCACTCTCTTATGCCCAG
Seq C2 exon
GTTGCTGGATGAAGTCAACATGCTTGAGCAACTCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:13
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:
PF0106717=Calpain_III=FE(44.3=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAACCTCCAGGACATCCA
R:
GCTCAAGCATGTTGACTTCATCC
Band lengths:
239-630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]