HsaINT0027474 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42387753-42389096:+
Coord C1 exon
chr15:42387753-42387886
Coord A exon
chr15:42387887-42388927
Coord C2 exon
chr15:42388928-42389096
Length
1041 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGC
5' ss Score
5.66
3' ss Seq
GTCTTCATCCTCTCTCTAAGGCT
3' ss Score
6.85
Exon sequences
Seq C1 exon
TTCTGGCGCTATGGAGAGTGGGTGGACGTGGTTATAGATGACTGCCTGCCAACGTACAACAATCAACTGGTTTTCACCAAGTCCAACCACCGCAATGAGTTCTGGAGTGCTCTGCTGGAGAAGGCTTATGCTAA
Seq A exon
GTAAGCAACACTTTAGAATGTGAGGTGGGGCTAGAGGTGAGAAAGTGGGTTGCAAAATCCAGCCGAGACCTCACTCACAGGAAGAGGCATGTGCCTCTATACGTGCATATGTGTGGGCATGCAAGTCCAACTGTGACCCAAAGTTAGAGATCAGTTCCAGGCAACAACAGCTCTAACTAAAAACATTAAATTTAAGAGTAGAAATGAAGATTTGCATAGAAGACCTTTAGCTTTAGCTTACCATAGCGAGTTCTTTCATTGCACCTCCATGGTGGCATTGCAAGTCTTGGATCAGAGCATTGTATCTCTGGAGCTCAGATCCCAGGGTCTCGCTTGGCTCAACCTCATGTGCTTATAGCAGATTTATAAAGCCATGTTGTCTCTCAACTTAAAAGCTCCACCCCAGATGCTAATAATGGATTTTTTAAATTTTTTTGAAACAAGGTCTCACTCTGTAATGCAGGCTGGAGTGCAGTGGTGCAGTCACGGCTCACTGCAGCATTGACCTCCTGGGTTCAAGGTGCTCCTCCCACCTCAGCCTCCCAAGTAGCTGGGACTACATGCGGGCATCACCATGCCCAGTTAATTTTTGTATTTTTTTGTAGAGACGGGGTTTTGCCATGTTGCCCAGACTGGTCTCGAACTCTTGGGCTCATGCAATCCACCAGCCTTGGCCTCCCGAAGCGCTGGGATTGCCGGTGTGAGCCACCACACCGGCAGCTGCTAATGGCTTTAATGCAGCCCTTCCTCAACGTTCAGGATGTAGTGGAAAGAGCTCTCAGGAAGTGGGGATAGCTGGGTTTCAATCCCAGTGCTTCTGGCTCTCTGTGGTCTTGGGTGGGTCACTTAGCCTCTTGAGCTCAGTTTCTTCATTATGAAGAAAGGGAATCATTGTTTCCATCCCATGAGCTCATAGGGTTAATGTGGAATTGATGAAAGAACATCACAGCATCCAAGAGGTAAAGTTCTGGTGGCAGTGGTACCTGGGTTTTGTTCCCTGGAACTCTGTGACCCCAAATTGGTCTTCATCCTCTCTCTAAG
Seq C2 exon
GCTCCATGGTTCCTACGAAGCTCTGAAAGGTGGGAACACCACAGAGGCCATGGAGGACTTCACAGGAGGGGTGGCAGAGTTTTTTGAGATCAGGGATGCTCCTAGTGACATGTACAAGATCATGAAGAAAGCCATCGAGAGAGGCTCCCTCATGGGCTGCTCCATTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:4
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(14.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.9=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:
TTCTGGCGCTATGGAGAGTGG
R:
ATCAATGGAGCAGCCCATGAG
Band lengths:
303-1344
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