HsaINT0027321 @ hg38
Intron Retention
Gene
ENSG00000014216 | CAPN1
Description
calpain 1 [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr11:65206463-65206819:+
Coord C1 exon
chr11:65206463-65206674
Coord A exon
chr11:65206675-65206779
Coord C2 exon
chr11:65206780-65206819
Length
105 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
TTCCTCCCCACTCTCTGCAGGGA
3' ss Score
10.81
Exon sequences
Seq C1 exon
CTGGTGGGCCAGCCGGCCGTACACTTGAAGCGTGACTTCTTCCTGGCCAATGCGTCTCGGGCGCGCTCAGAGCAGTTCATCAACCTGCGAGAGGTCAGCACCCGCTTCCGCCTGCCACCCGGGGAGTATGTGGTGGTGCCCTCCACCTTCGAGCCCAACAAGGAGGGCGACTTCGTGCTGCGCTTCTTCTCAGAGAAGAGTGCTGGGACTGT
Seq A exon
GTGAGTCATGGACTGGCCCCTGCCACTCTCCCCTCTCCCAGCCTCCCCTCTCAGGCCCTCTGCTGTCCCCCTCTGACTGGCTCCTTTCCTCCCCACTCTCTGCAG
Seq C2 exon
GGAGCTGGATGACCAGATCCAGGCCAATCTCCCCGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000014216:ENST00000533820:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(44.3=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
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:
AGCCGGCCGTACACTTGAAG
R:
CTCATCGGGGAGATTGGCCT
Band lengths:
242-347
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