HsaINT0027362 @ hg19
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:1478]
Coordinates
chr6:44150678-44150972:+
Coord C1 exon
chr6:44150678-44150756
Coord A exon
chr6:44150757-44150855
Coord C2 exon
chr6:44150856-44150972
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGCC
5' ss Score
3.48
3' ss Seq
CTTCTCTCTCCCTCTCTCAGGCA
3' ss Score
11.54
Exon sequences
Seq C1 exon
GACATCTTCAGAGAGTGTGACCAGGACCATTCAGGCACCTTGAACTCCTATGAGATGCGCCTGGTTATTGAGAAAGCAG
Seq A exon
GTGGCCAAGGGTCAGGAGTGGGCCTTGGGGCAGGGAAGAGGATGGCAGTGTCCAGAGGCCCAGACTTTTCCCCTCCCCACTTCTCTCTCCCTCTCTCAG
Seq C2 exon
GCATCAAGCTGAACAACAAGGTAATGCAGGTCCTGGTGGCCAGGTATGCAGATGATGACCTGATCATAGACTTTGACAGCTTCATCAGCTGTTTCCTGAGGCTAAAGACCATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225-CAPN11:NM_007058:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=FE(27.4=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(41.1=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:
CAGAGAGTGTGACCAGGACCA
R:
AGCCTCAGGAAACAGCTGATG
Band lengths:
174-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)