RnoINT0029133 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57363953-57364465:+
Coord C1 exon
chr19:57363953-57364110
Coord A exon
chr19:57364111-57364256
Coord C2 exon
chr19:57364257-57364465
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACCCCTGCTTTCTCTTGCAGTGC
3' ss Score
12.2
Exon sequences
Seq C1 exon
ACACCTTCTGGACCAACCCACAGATAAAGCTGTCTCTGACAGAGAGGGATGAGGGCCAGGAGGGCTGCACTTTCCTAGCAGCCTTGATGCAGAAAGACCGCAGGAGGCTCAAGAGGTTTGGTGCCAACATGCTGACCATTGGCTATGCCATTTACCAG
Seq A exon
GTAAGGGACCTGCCTTTCTCAGCATCCTTGCAGTGGCTTTGAGCTTCCTGTGGCTTCTGGACCTTGTGTCATGATCAAAAGTCAATCGTCCAACTGAGCATGAAGAACAGTCATGTCTTCCTGACAACCCCTGCTTTCTCTTGCAG
Seq C2 exon
TGCCCAGACAAGGACGGACACCTGAATAGGGACTTTTTCAGGTACCATGCCTCTCTGGCCCGAAGTAAGACATTCATCAACTTGAGAGAAGTCTCAGGCCGCTTCCAGCTGCCCCCGGGAGACTATATCCTCATCCCCAGCACCTTTGAGCCACACCAGGAGGCTGACTTCTGCCTGAGAATCTTCTCTGAGAAGAAAGCTGTTACTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:10
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:
PF0106717=Calpain_III=FE(35.4=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(46.9=100)
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:
TGCACTTTCCTAGCAGCCTTG
R:
CTCAAAGGTGCTGGGGATGAG
Band lengths:
243-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]