HsaINT0027464 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42408211-42409380:+
Coord C1 exon
chr15:42408211-42408324
Coord A exon
chr15:42408325-42409302
Coord C2 exon
chr15:42409303-42409380
Length
978 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTCT
5' ss Score
2.68
3' ss Seq
TTTCCTTTGTGCCTCCACAGCCA
3' ss Score
10.4
Exon sequences
Seq C1 exon
CCCATCATCTTCGTTTCGGACAGAGCAAACAGCAACAAGGAGCTGGGTGTGGACCAGGAGTCAGAGGAGGGCAAAGGCAAAACAAGCCCTGATAAGCAAAAGCAGTCCCCACAG
Seq A exon
GTGTCTGGGCATGTGGCATGGGTGGGGTGGCCAGCACGCTACAGGGGCTTCCTATGCGCTTGGGATACACAGGGGCTGGAGGCTTCCCAGGAGTTTGTCTTGAACATCTGGAGGTTTGAATTTGTCCCACTGACCTTTTCTTTCAGCAAGTTCCCCTGAAATTTGGGCTGCTGCTTGGGTGAATATCCCAGGATGGGGGTTCCATTCTAGGAGTGGACTGGCAGGCTGAGCCTCCCATGGAGCTGATCCAGCCAGGATACAGAGAAGGGGAGGCAAAGGCTGAGACAGAACCAGCTTGAGAGCGGAGGCGCAACTCTTGTCTCCTGGTGGCCTTGAGCATTTCACAATAGGGGGATAAAGGATAGGAGCAGAAAAGTGGGGCTGACTTCAGAAATGGGGTCCTCTAGAGCTCACGGGAGGGTGTTAGATTGGAGTGGGAGCTTAGTGGAGGTGAGCCTTAGAGGCAAAAGTCTCCAGACCAATCCAGGGCCCCTCTTCTATCCGGGGGCCCCTCTTCTATCCAGGGCCCCTCTTCTGTCTGGGAGCCCCTCTTCTATCTGGGGCCTCATGCAGTGGGGCCTAGGGGAGGTTCTCTGAGGACTTGGCCTTGATGACAGGGTGGCTGGAGGAATCAGAACGGTCAGACCTTCTTTGACCTGCGGGCACCTTTAGTTGGAATGGTCAGGCCTGGGATGGTGGAGGGGGCTCTTGCAGGTGGGGACTGGGGTGGCGGGGAGGAGGCTGTATGGCCGCCATATCTCCTTTGGCTGGGGGCGTCAGGGCTGGAGAGGTGTGAAGAGTCCCTGAGGCCTCGATGCATCTCACTCCAGCTCACCAGGTCTGCATTTGCCCGTCCCCAGCTCCTGCTGCCACCTCCGGCCGTTTTAGGCACTTGGCTCCCTTGGCCCAGAGGAGCTTGCCTCACAGGCCTGTGCACCTCTGACCCCTGTGAACCAGTTTTCCTTTGTGCCTCCACAG
Seq C2 exon
CCACAGCCTGGCAGCTCTGATCAGGAAAGTGAGGAACAGCAACAATTCCGGAACATTTTCAAGCAGATAGCAGGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.762 A=NA C2=0.720
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134051=EF-hand_6=PU(28.2=42.3)
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:
CCCATCATCTTCGTTTCGGACA
R:
TCTCCTGCTATCTGCTTGAAAATGT
Band lengths:
191-1169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development