HsaINT0027482 @ hg19
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3, (p94) [Source:HGNC Symbol;Acc:1480]
Coordinates
chr15:42694588-42695200:+
Coord C1 exon
chr15:42694588-42694756
Coord A exon
chr15:42694757-42694991
Coord C2 exon
chr15:42694992-42695200
Length
235 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GGGCTCTCCCCATCTCTCAGATG
3' ss Score
7.67
Exon sequences
Seq C1 exon
CCCTCCTCCACGCTTACAGCCACACACACAGTCACACAGACGCGTTCTGAGGGTGGCTGCCCGCTTGGGATGGAGGAATCACTTCCCTCAGAACCCAGCCAAGTCCTCTAGGCCTCCTTGGGGGTCCTTCCAGCCTGAGGGGCTTCGGAGCTGAGGAGCAGCTGTTCTG
Seq A exon
GTAAGTGTCCCTGAGTGTGGGGATGACACATTTGCCATTCACTCTGAATCACAACAGAAAAGGAAGAGGAAGTGAGGTAGGGAGGCTATTTAAGCCTTGGGAGTCGGAAGTAGGGAGGTTGAAACTGTGACATGGGTGACCAGGGAGTTGGGAAGGGACCCTTGGAGGTGGCTGTGGCAGGACAGGATGTTCCTCCCGAGGGGCTCATGTGCCCTGGGCTCTCCCCATCTCTCAG
Seq C2 exon
ATGCACGGGAACAAGCAGCACCTGCAGAAGGACTTCTTCCTGTACAACGCCTCCAAGGCCAGGAGCAAAACCTACATCAACATGCGGGAGGTGTCCCAGCGCTTCCGCCTGCCTCCCAGCGAGTACGTCATCGTGCCCTCCACCTACGAGCCCCACCAGGAGGGGGAATTCATCCTCCGGGTCTTCTCTGAAAAGAGGAACCTCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529-CAPN3:NM_173088:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.051
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0106717=Calpain_III=FE(44.5=100),PF156271=CEP76-C2=PU(67.6=98.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTACAGCCACACACACAGT
R:
TAGGTGGAGGGCACGATGAC
Band lengths:
304-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)