RnoINT0029063 @ rn6
Intron Retention
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112274173-112275147:+
Coord C1 exon
chr3:112274173-112274286
Coord A exon
chr3:112274287-112275069
Coord C2 exon
chr3:112275070-112275147
Length
783 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTCT
5' ss Score
-0.33
3' ss Seq
TCTCCTTTGTGTCCCCATAGCCA
3' ss Score
11.03
Exon sequences
Seq C1 exon
CCCATCATCTTCGTTTCAGACAGAGCAAACAGCAACAAGGAGCTGGGTGTGGACCAGGAGGCAGAGGAGGGCAAAGACAAAACAGGGCCGGATAAACAAGGGGAAAGCCCACAG
Seq A exon
GTTTCTGAGCATGCAGCATGGATGGGGAGTTTAGCTCGCAGTGGGGGCTCTGCTATGCCCTTGGGGGTCCATAGGGGTTATGGAGGCTCCCAGGGGAGGGTCTCTTCAACACTGAGGGGTTTGGAATTGCCCCACTGACTTTTCCTCCCAGCAAGTTCCTCTGAACTTGGCTGGTATTTCTTGGGTAAATGTCCTAAGGTGGCTGCCACACAGACTCAGTCCTGGGCTGGAAAGGATAGGCCAGGCACAGCCCACGGAAGCTTCTCCAGCTAGGACAATGGCGGACAGGGAAACAAGGCTAAGACAAGCTGGCAGGAGAGAACATGGCTGAACGCTGTCTTTGATATTCAGAGTTGTTGGCAAGGGAGGAGAAAAGGATGGTAGCTGAAAGTAGGGCCTGACAGCAGCTAAGCATTCCTGCAGAACTCCATCCAGGAGAAACCATCAAGTGGGGATGGAGGGGTCCTTTGAGGACTTAGCCACAAAGACAATAGTGGTTGGAGGACCTGGCCAGAAGTCAGGCTCTAAACAGCAAAGAAAGTTGTAACTGGAAGAGAGCTGGGAGAGAGCCGAGGTGCTGTCTGCATGTTGGCATGGCAAGTTTGTCCTTTGGCTTGAGGTGCCAGGGCTAGTGAGGCAGGAAGTAGAGGGCTACAGTCCTCACTCCGGGTCTGCAGATAGACTGAAGACATGAGCCCTGTGCCACCTACTGTTGCTTTGTGGGGCTTTTAGGGACACTGACACCTGGGTTCCCATAAACCAGTCTCCTTTGTGTCCCCATAG
Seq C2 exon
CCACGGCCTGGCCACACAGACCAGGAGAGTGAGGAGCAGCAGCAATTCCGGAACATCTTCAGGCAGATTGCAGGCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609:ENSRNOT00000011761:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.789 A=NA C2=0.731
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCATCATCTTCGTTTCAGACAGA
R:
CGCCTGCAATCTGCCTGAAG
Band lengths:
190-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]