HsaINT0027331 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65183128-65183592:+
Coord C1 exon
chr11:65183128-65183197
Coord A exon
chr11:65183198-65183473
Coord C2 exon
chr11:65183474-65183592
Length
276 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
GTGCATCCCTCCTGCCCCAGGGG
3' ss Score
7.77
Exon sequences
Seq C1 exon
GAACTGCTGTCAAACCCCCAGTTCATTGTGGATGGAGCTACCCGCACAGACATCTGCCAGGGAGCACTGG
Seq A exon
GTAGGCCCCCAGGGCGTCGGGTCCCGGGTATTTTTTCCACAGTAGTTCCCCATTCCCGCTCCTTCAGGCTCTGCCCCAACCCCTCCCTCTTGCAAGCCCAGGCAGGATCTGGCTATCAGCGCTGGGGCTGGTTTGCCCAGATTCCTGGGTCTTTTCTGCAAGCTGAGGGGAGTTAAGTGGCACCCTGGCCAAGGAACCCCAGATTCTCCCTAGCACCCGCTTCCCCCCCCGGGGCAGGTTGGTAGAGCAGGCTAATGTGCATCCCTCCTGCCCCAG
Seq C2 exon
GGGACTGCTGGCTCTTGGCGGCCATCGCCTCCCTCACTCTCAACGACACCCTCCTGCACCGAGTGGTTCCGCACGGCCAGAGCTTCCAGAATGGCTATGCCGGCATCTTCCATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:3
Average complexity
IR
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(15.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(13.2=81.8)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTGCTGTCAAACCCCCAG
R:
CTGGAAATGGAAGATGCCGGC
Band lengths:
189-465
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