RnoALTD0005192-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000018480 | Capn9
Description
calpain 9 [Source:RGD Symbol;Acc:70965]
Coordinates
chr19:57372947-57374106:+
Coord C1 exon
chr19:57372947-57373005
Coord A exon
chr19:57373006-57373015
Coord C2 exon
chr19:57374028-57374106
Length
10 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGT
5' ss Score
9.89
3' ss Seq
TGCTCTACTTCCTGCCCCAGGAC
3' ss Score
8.61
Exon sequences
Seq C1 exon
ACCAGCGGCAACGGGAAGATGGAGTTCGAAGAGTTCCGGGTGTTCTGGGACAAGCTGAG
Seq A exon
GTACTGGATG
Seq C2 exon
GACCTGTTTCTCCAGTTCGATGTGGACAAGTCCGGCACCATGTCTTCCTATGAGTTGCGGACAGCACTGAAAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018480-18-15,19-15-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003627=EF-hand_1=PD(62.1=78.3),PF134051=EF-hand_6=PU(5.9=8.7)
A:
NA
C2:
PF134051=EF-hand_6=FE(76.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAACGGGAAGATGGAGTTC
R:
ATAGGAAGACATGGTGCCGGA
Band lengths:
104-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]