HsaINT0027466 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42409787-42409995:+
Coord C1 exon
chr15:42409787-42409844
Coord A exon
chr15:42409845-42409930
Coord C2 exon
chr15:42409931-42409995
Length
86 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
ACTCTTCTCCATCCCCCCAGACA
3' ss Score
10.15
Exon sequences
Seq C1 exon
GACATGGAGATCTGTGCAGATGAGCTCAAGAAGGTCCTTAACACAGTCGTGAACAAAC
Seq A exon
GTGAGTTGCTCAAACCAAATGGGGGTGGGGTGGGTGGGGAGTCCCGTTGTCTCAAAGCAGCTCCTCACTCTTCTCCATCCCCCCAG
Seq C2 exon
ACAAGGACCTGAAGACACACGGGTTCACACTGGAGTCCTGCCGTAGCATGATTGCGCTCATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:17
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=0.016
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(30.5=94.7)
A:
NA
C2:
PF134051=EF-hand_6=PD(17.9=31.8)
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:
GACATGGAGATCTGTGCAGA
R:
CTACGGCAGGACTCCAGTGT
Band lengths:
104-190
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