RnoALTD0005183-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112274192-112275147:+
Coord C1 exon
chr3:112274192-112274286
Coord A exon
chr3:112274287-112274470
Coord C2 exon
chr3:112275070-112275147
Length
184 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAAT
5' ss Score
4.69
3' ss Seq
TCTCCTTTGTGTCCCCATAGCCA
3' ss Score
11.03
Exon sequences
Seq C1 exon
ACAGAGCAAACAGCAACAAGGAGCTGGGTGTGGACCAGGAGGCAGAGGAGGGCAAAGACAAAACAGGGCCGGATAAACAAGGGGAAAGCCCACAG
Seq A exon
GTTTCTGAGCATGCAGCATGGATGGGGAGTTTAGCTCGCAGTGGGGGCTCTGCTATGCCCTTGGGGGTCCATAGGGGTTATGGAGGCTCCCAGGGGAGGGTCTCTTCAACACTGAGGGGTTTGGAATTGCCCCACTGACTTTTCCTCCCAGCAAGTTCCTCTGAACTTGGCTGGTATTTCTTGG
Seq C2 exon
CCACGGCCTGGCCACACAGACCAGGAGAGTGAGGAGCAGCAGCAATTCCGGAACATCTTCAGGCAGATTGCAGGCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609-22-22,23-22-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.789 A=NA C2=0.731
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138331=EF-hand_8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAACAGCAACAAGGAGCTG
R:
GCCTGCAATCTGCCTGAAGAT
Band lengths:
165-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]