HsaINT0027542 @ hg38
Intron Retention
Gene
ENSG00000203697 | CAPN8
Description
calpain 8 [Source:HGNC Symbol;Acc:HGNC:1485]
Coordinates
chr1:223628009-223628780:-
Coord C1 exon
chr1:223628662-223628780
Coord A exon
chr1:223628143-223628661
Coord C2 exon
chr1:223628009-223628142
Length
519 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GCTGTGTCCCCCCTCCCCAGTTC
3' ss Score
9.26
Exon sequences
Seq C1 exon
GTGACTGCTGGCTTCTGGCTGCCATTGCCTCCCTGACCCTGAATGAAGAGCTGCTTTACCGGGTGGTCCCCAGGGACCAGGACTTCCAGGAGAACTATGCGGGAATCTTTCACTTTCAG
Seq A exon
GTACTGTGCTCTGCTCTGGCCCTTTGTTGCTGTTTTCCGTATTCTTAGGGCTCACTGCAGGTCCACTGCGTCAGAAATTCTGGGTTTGGGGCACAGTGACCTATGTCTTAATAATCCCTCTAGGTGACTCTGATGCACACTTCAGTCTGAGAACCTCTGCTTTAATGCATCCATCCAGATATCCACACATCCATCCTCTTCCCAGCTCCCCTAGGCCACGTGGCCTTCAGGAAAGCCCTGTGGACTGAGGGTCAGGAGGTGTGGGTCTGAATCACTTCCTGCTGCCACTAGGTGGCGCTGGGCAAGTTCTCTGATGCACAAACGCAGACCCTGGACTAGATGTTCCCGGGTTCATCTGGCATCTCCTATGTGCACAGATAAGGCAGACACATGTCCTGCTCCTAAGGAGCCAAGACTCGAACACTGATGGCACAGAGTCCCCACGTGAGGTCCCCTGGAGGGACTCCCTTTACACATCTGCTTATTCATGTGAGCAGCCGCTGTGTCCCCCCTCCCCAG
Seq C2 exon
TTCTGGCAGTACGGAGAGTGGGTGGAGGTGGTCATTGACGACAGGCTGCCCACCAAGAATGGACAGCTGCTCTTCCTACACTCGGAACAAGGCAATGAATTCTGGAGTGCCCTGCTGGAGAAAGCCTATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000203697:ENST00000366873:3
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(13.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.7=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:
GACTGCTGGCTTCTGGCTG
R:
GCATAGGCTTTCTCCAGCAGG
Band lengths:
248-767
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