HsaINT0027368 @ hg19
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:1478]
Coordinates
chr6:44140677-44141123:+
Coord C1 exon
chr6:44140677-44140810
Coord A exon
chr6:44140811-44140954
Coord C2 exon
chr6:44140955-44141123
Length
144 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TGCCTTCTCTGTGCCCACAGGCT
3' ss Score
11.73
Exon sequences
Seq C1 exon
ATTTGGCAGTTTGGACAGTGGGTGAACGTGGTGGTAGATGACCGGCTGCCCACAAAGAATGACAAGCTGGTGTTTGTGCACTCAACCGAACGCAGTGAGTTCTGGAGTGCCCTGCTGGAGAAGGCGTATGCCAA
Seq A exon
GTGAGTGCTGGGAGCTGAGGAAGGGGGCTTGCCTTGCCTCTGTCTGGACAGCTGGAATCAGGGGGAGGGGAGGGGGTAGCAGGACATCCCTCCCTCCCCTCACCTCCATCCTAGAGCCCAACAGTGCCTTCTCTGTGCCCACAG
Seq C2 exon
GCTGAGTGGGTCCTATGAAGCATTGTCAGGGGGCAGTACCATGGAGGGCCTTGAGGACTTCACAGGAGGCGTGGCCCAGAGCTTCCAACTCCAGAGGCCCCCTCAGAACCTGCTCAGGCTCCTTAGGAAGGCCGTGGAGCGATCCTCCCTCATGGGTTGCTCCATTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225-CAPN11:NM_007058:6
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:
PF0064816=Peptidase_C2=FE(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=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:
GACAAGCTGGTGTTTGTGCAC
R:
TCAATGGAGCAACCCATGAGG
Band lengths:
242-386
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)