DreINT0005754 @ danRer10
Intron Retention
Gene
ENSDARG00000055338 | CAPN1 (2 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr21:27457751-27458002:-
Coord C1 exon
chr21:27457919-27458002
Coord A exon
chr21:27457837-27457918
Coord C2 exon
chr21:27457751-27457836
Length
82 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GATGTAAATGTGTGGGCCAGGTG
3' ss Score
4.18
Exon sequences
Seq C1 exon
ATTACAAGTTTTTTTGACATGGAGGCCATCACCTTTAAAAAACTAGTGAAAGGCCATGCCTACTCCATTACCGGAGTGGACGAG
Seq A exon
GTGAGTACTGGATTTTGATTGACAACAATCTCAGCCAATTACACAACAGCTGATCACTGGCAGATGTAAATGTGTGGGCCAG
Seq C2 exon
GTGGAGTACAGACGAAGCCAGACCAAGCTGCTGCGCATCAGAAACCCTTGGGGAGAGGTGGAGTGGACGGGACCCTGGAGTGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055338:ENSDART00000077657:6
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(9.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGACATGGAGGCCATCACC
R:
TCATCACTCCAGGGTCCCG
Band lengths:
159-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]