HsaINT0027371 @ hg38
Intron Retention
Gene
ENSG00000137225 | CAPN11
Description
calpain 11 [Source:HGNC Symbol;Acc:HGNC:1478]
Coordinates
chr6:44176253-44176655:+
Coord C1 exon
chr6:44176253-44176338
Coord A exon
chr6:44176339-44176580
Coord C2 exon
chr6:44176581-44176655
Length
242 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ACCGCCCATCTCTGCTCCAGTGC
3' ss Score
7.92
Exon sequences
Seq C1 exon
GTCCACTACAGAGGCAAAATGGAAACACTGATTCGGGTCCGGAATCCCTGGGGCCGGATTGAGTGGAATGGAGCTTGGAGTGACAG
Seq A exon
GTAGGTGTCCCCAACCCAGGTGAGGGGTGGTCGGAGGATACAGCAGGCGGTGCCAGGTGGACCGACTGGTGTCCCATCTAGGAGAACAACCTGTACAACAGGGCAAAGCTCCTCCCTCTAGATTCTCCATCTAGCTCCGCACCCCAGCAGGCAGACATTCAGGGAAGAGGCAGTCCCCTGGAGAGGAAGGAGGTGCCACATGACCTCCGCCCCTCTCCTTCCACCGCCCATCTCTGCTCCAG
Seq C2 exon
TGCCAGGGAGTGGGAAGAGGTGGCCTCAGACATCCAGATGCAGCTGCTGCACAAGACGGAGGACGGGGAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137225:ENST00000398776:9
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(9.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCACTACAGAGGCAAAATGGA
R:
GAACTCCCCGTCCTCCGTC
Band lengths:
159-401
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