RnoINT0029069 @ rn6
Intron Retention
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112276611-112277006:+
Coord C1 exon
chr3:112276611-112276689
Coord A exon
chr3:112276690-112276889
Coord C2 exon
chr3:112276890-112277006
Length
200 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
CCTCTCCCTGCCCCTCCAAGGCT
3' ss Score
6.16
Exon sequences
Seq C1 exon
AAAATCTTCAAACACTATGACACTGACCATTCTGGTACCATCAATAGCTATGAGATGCGAAATGCAGTCAATGATGCAG
Seq A exon
GTGCTGGGGTGCAGTGGCTGCTGGGGGGAGGGAAAGGGCGACAACATGTAGACCTGAGAGCTAGGGAAAGCAGGAGAGAATGGGAGACTGGACTCCTAGGGCCCCTTTAGAGTTCATTTCCCAGGCCAGCCTGGCCAAGGGGCAGGGAAAGGAGACTGCAAGTCTGAGAACTTCATCCTTCCTCTCCCTGCCCCTCCAAG
Seq C2 exon
GCTTCCATCTCAACAGCCAACTCTATGACATCATCACCATGCGCTACGCAGACAAACACATGAACATCGACTTTGACAGCTTCATCTGCTGCTTCGTCAGGCTGGAAGGGATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609:ENSRNOT00000011761:21
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:
PF0003627=EF-hand_1=PD(86.2=92.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAATCTTCAAACACTATGACACTGA
R:
TGAACATCCCTTCCAGCCTGA
Band lengths:
196-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]