HsaINT0027475 @ hg19
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3, (p94) [Source:HGNC Symbol;Acc:1480]
Coordinates
chr15:42681126-42682294:+
Coord C1 exon
chr15:42681126-42681294
Coord A exon
chr15:42681295-42682150
Coord C2 exon
chr15:42682151-42682294
Length
856 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CATTCTCCATCGGGCCTCAGGAT
3' ss Score
6.26
Exon sequences
Seq C1 exon
GCTCCATGGTTCCTACGAAGCTCTGAAAGGTGGGAACACCACAGAGGCCATGGAGGACTTCACAGGAGGGGTGGCAGAGTTTTTTGAGATCAGGGATGCTCCTAGTGACATGTACAAGATCATGAAGAAAGCCATCGAGAGAGGCTCCCTCATGGGCTGCTCCATTGAT
Seq A exon
GTAAGTCTGGGGTGTGGGGCACAGGGTGGGGAGCTCCAAGTGTCAGGAAGCCTTTTACCCAATGAAGGGCAGCATAGAGCTTTTGTGTGGGACAGAGCGAATGTTTTGTTTGAGGAAGCAGGAACTGGCTCTCAACTTTGAGGACTGGGAATTTCTCAAGGGAGAACAGTTCTTCCGGATTTTCAATAAAGACACTGGTCAAGGACATTTCAAGCCCTGGAATGTCAGTGGAAATCAGTCCAGAGGCCTGTGTCAGTGGAGGCCTCCCTTGCTGGTGCTCCTCAGTCTCAGCACGCTCCCATTAAGCTGGCCACGTACTTGGCTGTGGACCTGAGCCCACCATTTCCCTAAGAAAGCCTCCCAGTCACTGGGCTTTCACCACACCTCCCCGCTTGAGACGTGGGCTTTGTGTTGTTACCTGGGAGAAGCTAAGCCTGCAGCACCTTTCAGTGCAAAGAAATGCTGTGAACTGAGACAGGAGCCAAGGGTAGGGAGATGGCCGCCCATGGCCAGGCCTCCTTCAGGGGGCATGCCTTCCCTGAGGGCTGCTCAGTATATTGATATGATAATCTTAGTGGTTTCCATTGGGGAGGATGGGGCTGAAGCTGAATTCCTGCCCCTTCTTCTCCCAACACGCCCAATGGACAGCTTGGAAGGTCAGTTAGCACACAACACCATGGATGAACTTTTTTTCTGTATCACTTTTCTCCGTCTTTCCTCCATTCGTGCTCTGTTGATCTCTCCTCTCTCCCTTTGTCTGTCCCATCTCTTTCTCCTCTCTCCTTCCCTTTCCACCCTTCTGTGTTTGTTCTCTCCCTCCCCTGTGTTGTTCCCTACATTCTCCATCGGGCCTCAG
Seq C2 exon
GATGGCACGAACATGACCTATGGAACCTCTCCTTCTGGTCTGAACATGGGGGAGTTGATTGCACGGATGGTAAGGAATATGGATAACTCACTGCTCCAGGACTCAGACCTCGACCCCAGAGGCTCAGATGAAAGACCGACCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529-CAPN3:NM_024344:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(27.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(4.4=18.8),PF0064816=Peptidase_C2=PU(30.4=93.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCATGGTTCCTACGAAGC
R:
GGTCGGTCTTTCATCTGAGCC
Band lengths:
310-1166
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)