HsaINT0027470 @ hg38
Intron Retention
Gene
ENSG00000092529 | CAPN3
Description
calpain 3 [Source:HGNC Symbol;Acc:HGNC:1480]
Coordinates
chr15:42410588-42411000:+
Coord C1 exon
chr15:42410588-42410666
Coord A exon
chr15:42410667-42410883
Coord C2 exon
chr15:42410884-42411000
Length
217 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
TAACATGGTCCCCTCCACAGGAT
3' ss Score
9.59
Exon sequences
Seq C1 exon
AAAATTTTCAAACACTATGACACAGACCAGTCCGGCACCATCAACAGCTACGAGATGCGAAATGCAGTCAACGACGCAG
Seq A exon
GTGCTGAGAAGGAAGGGGTGGCAGGGATGTGGACCCGAGACGGTGGGAGCAGGAATGGGAGGGGACTAGGCTACTAGGGCCCCACTAGAGAAAGGAGAGGGAAAGGGCTTCTCACTTTCCCTTCCCAGGTCACAGAGTGGCCGAGAGGCAGGGAAAATAGAAGGCAGGCCCAAGGCCTCCAGCTCCACGTCCACCTCTAACATGGTCCCCTCCACAG
Seq C2 exon
GATTCCACCTCAACAACCAGCTCTATGACATCATTACCATGCGGTACGCAGACAAACACATGAACATCGACTTTGACAGTTTCATCTGCTGCTTCGTTAGGCTGGAGGGCATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092529:ENST00000318023:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003627=EF-hand_1=PD(86.2=92.6)
A:
NA
C2:
PF134991=EF-hand_7=FE(41.9=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:
TCAAACACTATGACACAGACCAGT
R:
GAACATGCCCTCCAGCCTAAC
Band lengths:
188-405
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