HsaINT0027466 @ hg19
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3, (p94) [Source:HGNC Symbol;Acc:1480]
Coordinates
chr15:42701985-42702193:+
Coord C1 exon
chr15:42701985-42702042
Coord A exon
chr15:42702043-42702128
Coord C2 exon
chr15:42702129-42702193
Length
86 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
ACTCTTCTCCATCCCCCCAGACA
3' ss Score
10.15
Exon sequences
Seq C1 exon
GACATGGAGATCTGTGCAGATGAGCTCAAGAAGGTCCTTAACACAGTCGTGAACAAAC
Seq A exon
GTGAGTTGCTCAAACCAAATGGGGGTGGGGTGGGTGGGGAGTCCCGTTGTCTCAAAGCAGCTCCTCACTCTTCTCCATCCCCCCAG
Seq C2 exon
ACAAGGACCTGAAGACACACGGGTTCACACTGGAGTCCTGCCGTAGCATGATTGCGCTCATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529-CAPN3:NM_024344:17
Average complexity
IR-S
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:
PF138331=EF-hand_8=PU(30.5=94.7),PF0175117=Toprim=PU(14.9=78.9)
A:
NA
C2:
PF038858=DUF327=PD(17.3=63.6),PF134051=EF-hand_6=PD(17.9=31.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATGGAGATCTGTGCAGA
R:
CTACGGCAGGACTCCAGTGT
Band lengths:
104-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)