HsaINT0027473 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42386167-42387886:+
Coord C1 exon
chr15:42386167-42386285
Coord A exon
chr15:42386286-42387752
Coord C2 exon
chr15:42387753-42387886
Length
1467 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGCGTGACGCTTCTGTGCAGTTC
3' ss Score
5.18
Exon sequences
Seq C1 exon
GGGACTGCTGGTTTCTCGCAGCCATTGCCTGCCTGACCCTGAACCAGCACCTTCTTTTCCGAGTCATACCCCATGATCAAAGTTTCATCGAAAACTACGCAGGGATCTTCCACTTCCAG
Seq A exon
GTGAGGTAATGAGAGTGTAGTTAAGAGGGCCAGCGGCAGGCCACCCACCGCTGGTCTCCTGGCCTTGACTTCCCAGAAGCTGGAGGAAACTTCCCACCCATCTACCCGCAGCGGCAACAGTCGGCATGGACCCCCTTAAGGCTTCAAGCCTGGGAGGAAGCAGTTGCTTATCTCTGGCTCCCTAATCCCTCCCCCACCACCTTCCACTATGTCCCAGAAAGACAGGAAGACATCCTGTTTACTGTGGGTCTATTTTTGTCTTTGCAGCTGTCTGGCTGCTTTTATTGCCTGCAGCCCTTCTCAAGTAGGTCCCTAAGATATTAGCACTGTGACACCACAGGACCCTTCAGGTTGTACAGGAACCCCTGTCCAGGGCTCCTGTATACTTCTTCCTCTCTAAGGCATGGCGGTACCAAGGCTATCACTCCTCTCTTCCAAGCCCTGGAAGAAGAGTCTGCTTAACCTGGGGATCAGGCTTCTTGTTTGCCCTAGAACTGAATCTGATGGTTCTAGAATCCATCCAGCTACTGGAAATTTTCTGGGTCCCAGTCACCTTGGCATAGAGCTGGTGCTAGAGCAGAACCAAACTGAATTCTACCTGTGAGGGTCTCGTAGCTTCCGGGATGCTGGGGAGTCAGCCTGTCTCCAGCTTCAAAGGCTCCCTCATGTCCCAGGATGACCCACATTATCAGTTCTTGCTCCCCGGGTCTTGCACCTCAGCACGGAAGGCCTCAGAAAAGGTCTGTCTCCAGGCTCAGACTCCCCCTCCTGCCGCCTTGGGAACATGGCATATTTAAAGGGTCTCAGATCTAAAGGGCCTTACATACAAATATCAGATAGATTTCTGTTCTCATTTCAATGAGGGAGAAAGTGCCATTGAAAAGGAGACTAAACCACATTTGGCCCTTTTCAGTTCAAACTGATTCATTCAAAAAAGAGCGACATCCAAACTTGAAATGATTGAACAATGTTCCTGCTACAGCTAGAATAGATTCTGGGTCACTTTGTTCCTCCGTTTCAATCCTTGTTCTTCAGTTTGGCATCAAGAAATACCTAAATCAGCACAGTGCCTTCACTGCATAGTTCCCAATCCTGGCCACATTGAATCAGCTGGGGGCACCTGAGAGTGCTGACACCCAGGCCCTGCCCCAGACCTGCTGAGCAGGAGAATGAAAATCTTACATCCTAAGACACTCATGGAGCACCTACTCTACCCATTACTGGGCTGGACTCTGTGGAAGACATGAAGTATATGTAACTCACTTCCAGCTCTCAAAAAGCACCCAGTCCAGTTAGAGACAGATTTACACACCCCAAACACAAAATAGGATGAACAGGCACCCAGATGCAGAGTCCAGGAAATGATGCTGCTTTGGGATTCAAGAACCCCCTGAGGAATGTGGAGGAAGGACACATTTCCTAACAGTAATTTGAGTATGTGACTCTGTGCGTGACGCTTCTGTGCAG
Seq C2 exon
TTCTGGCGCTATGGAGAGTGGGTGGACGTGGTTATAGATGACTGCCTGCCAACGTACAACAATCAACTGGTTTTCACCAAGTCCAACCACCGCAATGAGTTCTGGAGTGCTCTGCTGGAGAAGGCTTATGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:3
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(13.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.9=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:
GGACTGCTGGTTTCTCGCAG
R:
TAAGCCTTCTCCAGCAGAGCA
Band lengths:
246-1713
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