RnoINT0028975 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17749746-17750363:+
Coord C1 exon
chr9:17749746-17749804
Coord A exon
chr9:17749805-17749915
Coord C2 exon
chr9:17749916-17750363
Length
111 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
GTTCTCTGCTCTCTTTGCAGTGG
3' ss Score
10.24
Exon sequences
Seq C1 exon
CGTTCTTCTTATCCATGGACACCAAGAAAACTGGTTCTATTTGCCTGAATATAAACCAG
Seq A exon
GTAGGAGGGAAGTTGGAAGGGTGGTCGGGCCACACCCTGATCCCCTCCCCTCTAGTCCCGCCCACTCTCCAGCGGGTGCGCAAAGTCTCCTGTTCTCTGCTCTCTTTGCAG
Seq C2 exon
TGGCTGCACATAACCATGTGGGGGTAGGGAGATGCCGAGCCTGGCTCCCTCCCTTCTCCCTCCGCCAACGGTGCTCAGGCGGGGACGGTGAATGCTCCTTGTCGCCCTCGTTCTCCAGTGCCCCAGGCGCAGTGTTTACTTTGTGCCCCTGCTCTGGGCTGGACGGGAACTCTAACCCCCACTCCACCCTCACACCACCCGGAGCACTCTCACACCGTATTTTGACTAAAAATTAGGTGGATTCCCCTCCATAACCGCCCCTCCCCACCAGTTTTTCTCTGGCCAAGGCAGCCTTGCAGTTTGGTGTTTCCGCACGCTGTCAACTCACAACCGCCCTCTTGTCAGAAATTCCATTGCCTACCACCACCACCCCCAACCCAGCGTCGTACACATTATTCTAATAAATAGGACATGGTTAACCACCTAATTCTTAAACACCAAAGACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTCTTCTTATCCATGGACACCA
R:
GGTGGAGTGGGGGTTAGAGTT
Band lengths:
247-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]