HsaINT0027356 @ hg19
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:1478]
Coordinates
chr6:44148197-44148399:+
Coord C1 exon
chr6:44148197-44148236
Coord A exon
chr6:44148237-44148333
Coord C2 exon
chr6:44148334-44148399
Length
97 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCCTGCTCCCCGGCCCCCAGGAA
3' ss Score
8.59
Exon sequences
Seq C1 exon
GGAATTGGATGAAGTCAACTATGCTGAGCAACTCCAAGAG
Seq A exon
GTGAGGGGAGACTGTAGGGCTGGGGGTTGGAAGGAAGCTCCTGGGCCTGTGAAAGAAGTTTTCTGACCAGGTCCCTTTCCTGCTCCCCGGCCCCCAG
Seq C2 exon
GAAAAGGTCTCTGAGGATGACATGGACCAGGACTTCCTACATTTGTTTAAGATAGTGGCAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225-CAPN11:NM_007058:15
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:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATTGGATGAAGTCAACTATGCTG
R:
CTCTCCTGCCACTATCTTAAACA
Band lengths:
106-203
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)