RnoINT0029149 @ rn6
Intron Retention
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57362100-57362560:+
Coord C1 exon
chr19:57362100-57362177
Coord A exon
chr19:57362178-57362399
Coord C2 exon
chr19:57362400-57362560
Length
222 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGTG
5' ss Score
0.67
3' ss Seq
CATCCTCCCCTCTGTCTCAGGAT
3' ss Score
10.63
Exon sequences
Seq C1 exon
CTCTCCTGAGTGGCGCTCCATGAGCCTGGAGGAGCAGAAGCGCCTAGGTCACACCGCCCTTGACGATGGAGAATTCTG
Seq A exon
GTAGTGTCATCCTTCCATTTTTGTTTGAAATTGGGGTGCATGGGGCAACACCCACCATCCTTGTCCCCTTTCCTTCTTCATCCCCTTCCCTACCCCCTCTTTCCCCCTGTCTTCCTCTTCCCGGGAGGGACCCCTGGGTCTCCTTCCCAAGAAGGGTGTTAGATGGTTGACCAGTGCCATCATCATAACACTCCGGAGCACCCATCCTCCCCTCTGTCTCAG
Seq C2 exon
GATGGCATTTGAGGACTTCAAGACCCATTTTGACAAAGTGGAGATCTGCAACCTCACGCCTGATGCCCTGGAGGACAACACCCTCCACAAGTGGGAGGTGACCATCCACCAAGGAAGCTGGGTTCGTGGCTCCACCGCCGGCGGCTGCCGCAACTTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480:ENSRNOT00000025357:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.8=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.4=34.5),PF0106717=Calpain_III=PU(16.3=43.6)
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:
CTCCTGAGTGGCGCTCCAT
R:
CAGGAAGTTGCGGCAGCC
Band lengths:
236-458
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]