RnoINT0029065 @ rn6
Intron Retention
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112275477-112275683:+
Coord C1 exon
chr3:112275477-112275534
Coord A exon
chr3:112275535-112275618
Coord C2 exon
chr3:112275619-112275683
Length
84 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
ACCCTTCTCCATCCCCCCAGACA
3' ss Score
10.68
Exon sequences
Seq C1 exon
GACATGGAGATCTGTGCGGATGAACTCAAGAATGTCCTTAATACGGTGGTGAACAAAC
Seq A exon
GTGAGCGACTCGCGCCAGACGTGGGGGATGGGCAGGGGCCCCAGCTGTCTGAAAGCAGCTCCTCACCCTTCTCCATCCCCCCAG
Seq C2 exon
ACAAGGACCTGAAGACACAAGGGTTCACTCTGGAGTCCTGCAGAAGCATGATAGCTCTCATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609:ENSRNOT00000011761:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.112
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(50.0=29.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=100)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATGGAGATCTGTGCGGAT
R:
ATGAGAGCTATCATGCTTCTGC
Band lengths:
119-203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]