RnoINT0028967 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17746930-17747115:+
Coord C1 exon
chr9:17746930-17746969
Coord A exon
chr9:17746970-17747049
Coord C2 exon
chr9:17747050-17747115
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
CCCTCCATCCTTCTCCCCAGGAG
3' ss Score
10.63
Exon sequences
Seq C1 exon
GTTGCTGGATGAAGTCAACATGCTTGAGCAACTCCAAGAG
Seq A exon
GTAACAGGAAGCTCTGGGCTGGAGGGATTGGAAGTATGAAGGGTGTTTTTAAGACTGGCTCCCTCCATCCTTCTCCCCAG
Seq C2 exon
GAGACCATCACTGATGCAGATTTGGACCAGAATTCTGTAGAGTTGTTTGAGACGTTGGCAAACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:14
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:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGATGAAGTCAACATGCT
R:
CGGTTTGCCAACGTCTCAAAC
Band lengths:
103-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]