HsaINT0027365 @ hg19
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:1478]
Coordinates
chr6:44137018-44137712:+
Coord C1 exon
chr6:44137018-44137268
Coord A exon
chr6:44137269-44137642
Coord C2 exon
chr6:44137643-44137712
Length
374 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CCTTTATTCCTTCACTGCAGGAT
3' ss Score
10.53
Exon sequences
Seq C1 exon
AGCCCACTTTTACTGATACGGGAATGGTGGCTCACATAAACAACAGCCGGCTCAAGGCCAAGGGCGTGGGCCAGCACGACAACGCCCAGAACTTTGGTAACCAGAGCTTTGAGGAGCTGCGAGCAGCCTGTCTAAGAAAGGGGGAGCTCTTCGAGGACCCCTTATTCCCTGCTGAACCCAGCTCACTGGGCTTCAAGGACCTGGGCCCCAACTCCAAAAATGTGCAGAACATCTCCTGGCAGCGGCCCAAG
Seq A exon
GTGGGCACTGGAAGGGAGGCATGGACTCATGGATGGAAGGGAGCTTGTAGTGATCCCTCTATCACTTTTAGAATCTTCAATCTTCAACCCCCCACTACCCCATTCTGACCCTGGCACTAGGCCCCACCTTCATCAGAGCTGGGGACAGTTCTGAATATGCTTAAGCCAAACCTCCTAGGTAACCCTAAGGAAATCACCCACCAACCTCTGCTATCACAAGCTGCAGCTATGCCAAGTTGGTCCTGTACCCTCTCCCTGCCCCTCATATCTGTTCCCCTGGAACTTCAAGGTGGGCATCATTCCCCAGCAAAAGTGGGAGAAAGGTGGGGAGGGGGTGTCCTGGGCCCCCTGAAACCTTTATTCCTTCACTGCAG
Seq C2 exon
GATATCATAAACAACCCTCTATTCATCATGGATGGGATTTCTCCAACAGACATCTGCCAGGGGATCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225-CAPN11:NM_007058:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=40.5)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(31.1=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCACTTTTACTGATACGGGA
R:
GAGGATCCCCTGGCAGATGTC
Band lengths:
319-693
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)