HsaINT0027352 @ hg19
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:1478]
Coordinates
chr6:44144575-44145157:+
Coord C1 exon
chr6:44144575-44144735
Coord A exon
chr6:44144736-44144978
Coord C2 exon
chr6:44144979-44145157
Length
243 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
CTGACCCACTTCCGCCACAGGCA
3' ss Score
8.4
Exon sequences
Seq C1 exon
GATGTCCTACCAAGATTTCCTGAACAACTTCACGCTCCTGGAGATCTGCAACCTCACGCCTGATACACTCTCTGGGGACTACAAGAGCTACTGGCACACCACCTTCTACGAGGGCAGCTGGCGCAGAGGCAGCTCCGCAGGGGGCTGCAGGAACCACCCTG
Seq A exon
GTGGGTGAGGGGTGAGAGGGGAGGGGGTGTGCAGGGAGTGAAGGATGGGCCACGGCTCACCACGAAACCAGACCTGGGGCACGAGTCACCGGAGTCAGGGTCCATGAGGTCAAGGGTTAGTCAGATTTCACAGCCCCTGTGGAGGAGACAGCTCCAGTGTGGCTGGGGAAGCTCGGTCCACCCTGGGAAGGGCGTGGCCAAGGGAAGCCCCCGTATAACCACGCTGACCCACTTCCGCCACAG
Seq C2 exon
GCACGTTCTGGACCAACCCCCAGTTTAAGATCTCTCTTCCTGAGGGGGATGACCCAGAGGATGACGCAGAGGGCAATGTTGTGGTCTGCACCTGCCTGGTGGCCCTAATGCAGAAGAACTGGCGGCATGCACGGCAGCAGGGAGCCCAGCTGCAGACCATTGGCTTTGTCCTCTACGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225-CAPN11:NM_007058:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.083
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.1=43.6)
A:
NA
C2:
PF0106717=Calpain_III=FE(37.1=100)
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:
CTGGAGATCTGCAACCTCACG
R:
CGCGTAGAGGACAAAGCCAAT
Band lengths:
303-546
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)