HsaINT0027328 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65182701-65183197:+
Coord C1 exon
chr11:65182701-65182968
Coord A exon
chr11:65182969-65183127
Coord C2 exon
chr11:65183128-65183197
Length
159 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
GGACTCTGGGTCTCTCGTAGGAA
3' ss Score
6.15
Exon sequences
Seq C1 exon
GATGTCGGAGGAGATCATCACGCCGGTGTACTGCACTGGGGTGTCAGCCCAAGTGCAGAAGCAGCGGGCCAGGGAGCTGGGCCTGGGCCGCCATGAGAATGCCATCAAGTACCTGGGCCAGGATTATGAGCAGCTGCGGGTGCGATGCCTGCAGAGTGGGACCCTCTTCCGTGATGAGGCCTTCCCCCCGGTACCCCAGAGCCTGGGTTACAAGGACCTGGGTCCCAATTCCTCCAAGACCTATGGCATCAAGTGGAAGCGTCCCACG
Seq A exon
GTGAGAGGGGCCATCCTGGGTGGGACTCGGCTAAGCCAGATCCTGGATGAGGAGTAGGGATGGGACTCCATGTCCCTGGTGGGGAATGGGGTCTGGGGTGGCCTGGTGCCAATTTCTGGGAGGGGCTGGCCGAGGAACAGGACTCTGGGTCTCTCGTAG
Seq C2 exon
GAACTGCTGTCAAACCCCCAGTTCATTGTGGATGGAGCTACCCGCACAGACATCTGCCAGGGAGCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.002 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=38.2)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(15.9=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:
GTGTCAGCCCAAGTGCAGAAG
R:
ATGAACTGGGGGTTTGACAGC
Band lengths:
254-413
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