RnoINT0029002 @ rn6
Intron Retention
Gene
ENSRNOG00000020389 | Capn12
Description
calpain 12 [Source:RGD Symbol;Acc:1307341]
Coordinates
chr1:87072231-87072710:+
Coord C1 exon
chr1:87072231-87072394
Coord A exon
chr1:87072395-87072477
Coord C2 exon
chr1:87072478-87072710
Length
83 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CCTTCCTTCTTTTCCATCAGAAA
3' ss Score
10.12
Exon sequences
Seq C1 exon
GATGGAGCTTCAGGACTTCCTCACGCACTTCAACACGGTCCAGATTTGTTCACTGAGCCCTGAGGTGTTGGGCCCCAGCCCGGCTGGTGGCGGCTGGCACATTCACACCTTCCAGGGCCGCTGGGTGCGCGGCTTCAACTCCGGTGGGAGTCAGCCCAGCGCTG
Seq A exon
GTGAGGCCTGGGGACCCCTGAGAAGCATACTTGGGGGCTTGTGGCAGGGTGGGAACTCTACCACCTTCCTTCTTTTCCATCAG
Seq C2 exon
AAAACTTCTGGACCAATCCCCAGTTCCGGCTGACACTGCTGGAGCCGGATGAGGAAGAGGATGAAGATGATGAAGAGGGACCCTGGGGAGGCTGGGGAGCTGCAGGGGCACGGCCAGCGAGAGGAGGCCGAGTCCCCAAGTGCACGGTCCTACTGTCACTCATCCAACGCAACCGCCGGTGTCTGAGGGCCAAGGGCCTCACTTACCTCACTGTGGGCTTCCACGTGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020389:ENSRNOT00000027645:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.282
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(6.4=33.9),PF0106717=Calpain_III=PU(13.6=42.9)
A:
NA
C2:
PF0106717=Calpain_III=FE(43.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCACTGAGCCCTGAGGTGTT
R:
ATCCTCTTCCTCATCCGGCTC
Band lengths:
178-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]