HsaINT0027487 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42384483-42386285:+
Coord C1 exon
chr15:42384483-42384552
Coord A exon
chr15:42384553-42386166
Coord C2 exon
chr15:42386167-42386285
Length
1614 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGA
5' ss Score
7
3' ss Seq
TGCCCTGTGTCTGCCTGCAGGGG
3' ss Score
11.68
Exon sequences
Seq C1 exon
GAAATTTGCGAGAATCCCCGATTTATCATTGATGGAGCCAACAGAACTGACATCTGTCAAGGAGAGCTAG
Seq A exon
GTAGGAAAGTGCCTCAGGTCAGATCCTGCCAGATGATCAAGGGGTGATTACAAGGTGTGATCCCCTTCCAGGAGGTAAAGGGACAATCTGTGCTTGCTTCCAGTAACTTTTTGGAAGATTTTTTATAACAGTTGCTTTATGGTCGTTTATCTACATGCTGGCGATTGCTTCATTTCCTCCTACATGCCTCTTTAGCACTCTGCCATGCATCACAGGGGGTATCTGCATCCTGTGGCCTCCTCTCCAGTATCTCAAGGACACTTACATACCCCACTCAGCATGACAAAAGCCCTGCTTTTCACTGTATCGTCTTTCTTGGAAGACAGCTCTGTGACTGTGCACCAAGCATGCCCCTTGGGCATGGAGATTCTAGATACACACACAAAAGGCATCGCCAAGGAAAGCACTTGTAACTGGAACCCTTGTTTAAATTGCCCCAGCATAGCTCCATCTTAAAAGAGTCTTTCCACAAAGATGGCATCCGCCATGTGGATGAGCATCCAATTTTCTCTTTGATTGGTTAGCTTGACTGCTCCATCTGATCTTCCTCTCTCTCGACCTCTTGTTCAGAAAGTATTGTCTTTGGTGTGGACTATAAGCAAGCTCTGTGAAGTAAAATTGGAGAGAACACCAACAGAAACAATTTAAATTTGAGGAAAAGGGGGCACCTAAGACCAAAGGAATTTGGCTTATTTCATTCCAGAAGGGGAGGCTGAGAATAAATCAGATGAATATCTGGGTTCCTGCACCTGAGGGAAGGCTTCCTGCAGAGCCCTGGGCATAATAATCTGGGACCTTCAAACCAATAACCTCTTTCCAAGGAAAGACTGGCTGCTTCCAAGGAGGGTAGGGGAGAGTGGCTGCAGGCAGCTCTCAGTCTCCCCTGCACACTCTCAGTTGCATTTCACTTAACCCATCCTCCTTAGAAGGCAGCTCTGTGACCAGGTACACCCCCTATTATATATATATATACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGCAAAGTGTTACCTCCAACTACATACAGTACTCTGTCAGAAAAGAGGTTCAGAGAATAAGAAAACGTCCCGAGCTCATTCCGTTGCCAGCAATGTCTTACTGCCCCCTATAGACGGGTTCCAGGGCAGCTGCCTACCTGGCCTTCCTTCCAATACAAATCATCTTGGTGGATGGTTCTCTGAGGCTCAGTCTTCGCTGAAGTCAGAAGAGGAATTGGACTCACATTGCAAAGGCACAGGGCAGGGCAGATTTCCTACAGGTGTTAGGAAGAACAACCCAGTTATGATCACCTACTGCTCTGTCTCCATTGAGGCCTAAAAAGGAAGTGAGTTTATACTGCAGTTGGAGGAACTGCCTGCAGCCTTGAGGAAAATGTCTAGTCACAAGGGAGTAAGTTACCTGTTGATCATATTGTCAAGGAATTCCTGTCCAATTCTCCTTCCCTGGGTTGACACCTCTGTAAGGTCAGATCTGGAAGTAGGAGAGTGGGCACCAAGGGAGTCCCCGTTCAGGGAAGTGGAGTGGCTGGCTGGGATTGGGGCTTTTTCTTCCCAGGAGGAGCAGGAGTGCTCACGATCTGTGCCCTGTGTCTGCCTGCAG
Seq C2 exon
GGGACTGCTGGTTTCTCGCAGCCATTGCCTGCCTGACCCTGAACCAGCACCTTCTTTTCCGAGTCATACCCCATGATCAAAGTTTCATCGAAAACTACGCAGGGATCTTCCACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:2
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(11.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.2=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:
GAAATTTGCGAGAATCCCCGA
R:
AGTGGAAGATCCCTGCGTAGT
Band lengths:
184-1798
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains