HsaINT0027375 @ hg38
Intron Retention
Gene
ENSG00000182472 | CAPN12
Description
calpain 12 [Source:HGNC Symbol;Acc:HGNC:13249]
Coordinates
chr19:38735502-38736318:-
Coord C1 exon
chr19:38736110-38736318
Coord A exon
chr19:38735545-38736109
Coord C2 exon
chr19:38735502-38735544
Length
565 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGC
5' ss Score
4
3' ss Seq
TTCCCATCTGTAATTTGCAGGGA
3' ss Score
9.07
Exon sequences
Seq C1 exon
CTGCTGGGCCTCTGGGATTCCCCGCGCAGCCATGCGCTCCTGCCCCGGCTGCTGCGCGCCGACCGCTCGCCCCTCAGCGCCCGCCGCGACGTGACCCGCCGCTGCTGCCTGCGTCCAGGCCACTACCTGGTGGTGCCGAGCACCGCCCACGCCGGCGACGAGGCTGACTTCACTCTGCGTGTCTTCTCCGAGCGCCGCCACACGGCCGT
Seq A exon
GTGAGCCCCGGGCACCCAAATCCGACCCCATCCCTGCCTAGACAGGCCCCGAGACCCCCGAGACCCCCGAGACCCCCGAGACCCCCGAGACCCCCGAGACCTGACCTGCCCCGCCCCCAGAACCCCTGCCCCGCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCGCCCCGCCCCGCCCCGCCCGCAGAACCACCGCCCCGCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCCCCCAGAACCCCCGCCCCGCGAGGATGAGCCCAGGGCTCCACGGTCCCTACCTAGACCCCACGCGATTCCTCACCTGAGACCCCGTCCCACACAGCCCCAGCTGGGGCAAACAGCCCCCTCCCCACTTCCCATCTGTAATTTGCAG
Seq C2 exon
GGAGATCGACGACGTGATCAGCGCAGACCTGCAGTCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182472:ENST00000328867:12
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:
PF0106717=Calpain_III=FE(39.2=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGGGCCTCTGGGATTC
R:
GGTCTGCGCTGATCACGTC
Band lengths:
238-803
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