RnoINT0028999 @ rn6
Intron Retention
Gene
ENSRNOG00000020389 | Capn12
Description
calpain 12 [Source:RGD Symbol;Acc:1307341]
Coordinates
chr1:87070866-87071101:+
Coord C1 exon
chr1:87070866-87070940
Coord A exon
chr1:87070941-87071015
Coord C2 exon
chr1:87071016-87071101
Length
75 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ACTACTGACATTGTTTTCAGATG
3' ss Score
8.18
Exon sequences
Seq C1 exon
AGTGATCGGGGTGAGATCCGCACAGATGAAGGGCTTGTGAAAGGACATGCTTATTCTGTCACAGGCACACACAAG
Seq A exon
GTGAGTTAGACTAGGCTAACCCTTCCCTCTGTAATGATCCCTCCACACCACCCTCACTACTGACATTGTTTTCAG
Seq C2 exon
ATGTCTCTGGGCTTCACCAAGGTGCGGCTGCTGCGGCTGAGGAACCCCTGGGGCCGCGTGGAGTGGTCCGGGCCCTGGAGCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020389:ENSRNOT00000027645:6
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(8.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.4=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:
AGTGATCGGGGTGAGATCCG
R:
CCCAGGGGTTCCTCAGCC
Band lengths:
127-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]