DreALTA0000904-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000055338 | CAPN1 (2 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr21:27468483-27471091:-
Coord C1 exon
chr21:27470840-27471091
Coord A exon
chr21:27468553-27468572
Coord C2 exon
chr21:27468483-27468552
Length
20 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
ATGCCCTGTCTGACCCATAGGTC
3' ss Score
9.74
Exon sequences
Seq C1 exon
ATGGAGCCAATTTGTGCCATGGGAGTTGCTGCTCGCTTGAGGAGTGAGTGGGACCGAAACGAGGGATTTGGACAGAACCACATGGCCCTGAAATTCTTGGGCCAAGATTTTGAGTCCTTGCGTACTCGCTGCCTTCAGAGTGGACATCTGTTTGAGGATGATATTTTCCCAGCCCAGCAGTCATCCTTAGGATTCAAGGAGCTGGGCCCCAACTCTAGCAAAACCAGAGGTGTGCGCTGGATGAGGCCAACG
Seq A exon
GTCTTCTCTGTGCACCTCAG
Seq C2 exon
GAGTTCTGCTCTGACCCACACTTTATCGTAGATGGGGCTACACGCACTGACATCTGCCAAGGGGCTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055338-0-1,0-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=PU(11.3=40.5)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(15.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCCAACTCTAGCAAAACCA
R:
GGCAGATGTCAGTGCGTGTAG
Band lengths:
105-125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]