HsaINT0027462 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42402794-42403777:+
Coord C1 exon
chr15:42402794-42403002
Coord A exon
chr15:42403003-42403740
Coord C2 exon
chr15:42403741-42403777
Length
738 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
CATGTCTGTATTCCTCACAGGGA
3' ss Score
10.01
Exon sequences
Seq C1 exon
ATGCACGGGAACAAGCAGCACCTGCAGAAGGACTTCTTCCTGTACAACGCCTCCAAGGCCAGGAGCAAAACCTACATCAACATGCGGGAGGTGTCCCAGCGCTTCCGCCTGCCTCCCAGCGAGTACGTCATCGTGCCCTCCACCTACGAGCCCCACCAGGAGGGGGAATTCATCCTCCGGGTCTTCTCTGAAAAGAGGAACCTCTCTGA
Seq A exon
GTGAGTGCTGGCCCAGCTTTCCCACGTGTTTCTAAAAGCTCACATGGCCCACTCCAGAGGTTGAAGGCATGAGGCAGCTAGACACGTCTCCTCCAGGGTCCTTCTGCTGCTCCTGAGCCACTGGCCACATTACCCCCATTCATTCATTCATCCATTCTGTGATATTTATTGAGCACCTACTATGTTCCAGGCACTGTCCTAGGCACTAAGGATAGAGTAGTGAAGTAAACAGAAAGAAATCCCTGCCTTCATGGAGCTTAATATTCTAACATGAGACAATAATGGATAGGAAAAACATATGTAGCATGTTAGATTTGGAGAGGTGATATGGAGCAAAAATAAAGTAGGGAAGAGGGATAGGAGGTGTTGGGGATGCTTGAAATTTTAGGTTAGCATGGCCAGGAAAGCCACATCCTGTCCCTGGCCACCACAGATGAGCTCATAGCCCCTGCCACTCTGATCTCTGTCCTTGGAAGATGCACCAGGTCCATGGGTAGGTGGCTGGGTCATGCCTTTGGGGGGCTCTGAGCAATACTAACAAGAACCTGCGTGCCTGGGCTTGGCTGTCGGGGATGGTGCTGACATGGGGCTGGTTCCTGGGGTTGGGGTGTTCCAGGGGTTCTCTAGAGGCTGGTTCTGGCTTGGCTGCCAGGAAGCCGTGCACCAGAGCAAACCGTCCACGGGCCTCCTGCTTGCTTCTGGTGACACTGAGACCCCACATGTCTGTATTCCTCACAG
Seq C2 exon
GGAAGTTGAAAATACCATCTCCGTGGATCGGCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.659
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=WD(100=100.0)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCACGGGAACAAGCAGC
R:
CGATCCACGGAGATGGTATTTTCA
Band lengths:
239-977
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