RnoINT0029078 @ rn6
Intron Retention
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112263883-112264867:+
Coord C1 exon
chr3:112263883-112263960
Coord A exon
chr3:112263961-112264706
Coord C2 exon
chr3:112264707-112264867
Length
746 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCTCCTCTTTCAACCCTCAGGAT
3' ss Score
11.02
Exon sequences
Seq C1 exon
TTGGAAGGACTGGAGCTTTGTGGACAAAGACGAGAAGGCCCGTCTGCAGCACCAGGTCACCGAGGATGGAGAGTTCTG
Seq A exon
GTGAGTTCATGAACCAGGCAGGGAGGTGAGATCTCAGTTCCCAATCAGAAGCCATCACGTTCCATCTTTAGCATATCTGGGCCCTGTTTTCCCTGGGGGGGGGGCTCAAGGCCCAGCAAAGGTGAGGTTCTGAAAAGAGAGGGTCAGGTCATGGCAGTGACTGAGCTCAGACCCAGGCCCTGTCATGGCAGCTCCAGCCACCCTTGAGCACTGGCCCTGACATGGCTCTCTTCTGAACCAAGGGGCTTTTCTTACCTGATGTCCAGTGCCAGGCTTATTCTGGTCACATCAGCCTTCTGAGTCTCAGCTAACAACATCCCCTACGACACCTTTGGTTCCCTCCGGGTGCAGATGCATTTATCTGTGATGCCATAAGCCTTAAAACTATCTTTTCCCAAGTGACATCTCTTTCCCCTGTGCCTAAAATGTGCCTGGCAATGGGGAAGCACACAGTAACATTTTGGAGGATTGGTTTCCGGCTCTCTCAAACACAAATGAGGAGTCATGACCATAAGATACATCAGAAATGGGAGTGCCAGGCACACACCTGTAAGCCCATCATTTGAGAGACAGAGGCAATCAAAAGGTCAAGGTCAACCAAGACTAGAGGATGAAATTCCATCTCTCAAAAGCAATCGAACGAGCAAAGCGACATCATGGTCTTCTGGGGAGTTTTACTGTATTGTATTAGCCCTTGAATCTCCCCTTCCCCAGCCTGTGTGAGTCTCTCCTCTTTCAACCCTCAG
Seq C2 exon
GATGTCATATGATGACTTTGTCTACCATTTCACAAAGCTGGAGATCTGCAACCTCACAGCTGATGCCCTGGAGTCCGATAAGCTTCAGACCTGGACAGTGTCTGTAAATGAGGGCCGCTGGGTGAGGGGCTGTTCTGCTGGAGGCTGCCGGAACTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609:ENSRNOT00000011761:9
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:
PF0064816=Peptidase_C2=FE(17.6=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(12.8=34.5),PF0106717=Calpain_III=PU(15.5=43.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGGACTGGAGCTTTGTG
R:
CTGGGAAGTTCCGGCAGC
Band lengths:
238-984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]