HsaINT0027358 @ hg19
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:1478]
Coordinates
chr6:44148485-44148734:+
Coord C1 exon
chr6:44148485-44148542
Coord A exon
chr6:44148543-44148669
Coord C2 exon
chr6:44148670-44148734
Length
127 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ACCCCTTCCCTTCCTCACAGTCA
3' ss Score
10.9
Exon sequences
Seq C1 exon
GGCAAGGAGATAGGGGTGTATGAGCTCCAGAGGCTGCTCAACAGGATGGCCATCAAAT
Seq A exon
GTGAGTCTTCCACTCCTGCTGCACACGACCCCTCCCCCATATTTTGTGCCCCTCTTGATCACTCCCAGTGCCCCCACGATACCTCATTTACCCTGTCTCTCCTTTCTACCCCTTCCCTTCCTCACAG
Seq C2 exon
TCAAAAGCTTCAAGACCAAGGGCTTTGGCCTGGATGCTTGCCGCTGCATGATCAACCTCATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225-CAPN11:NM_007058:17
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=FE(31.1=100)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=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:
GGCAAGGAGATAGGGGTGTATG
R:
ATGAGGTTGATCATGCAGCGG
Band lengths:
119-246
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)