RnoALTA0035313-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000000500 | Scube3
Description
signal peptide, CUB domain and EGF like domain containing 3 [Source:RGD Symbol;Acc:1304880]
Coordinates
chr20:7740260-7740976:+
Coord C1 exon
chr20:7740260-7740475
Coord A exon
chr20:7740815-7740828
Coord C2 exon
chr20:7740829-7740976
Length
14 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CGCGGCCGACTCTCCCTCAGTCA
3' ss Score
5.74
Exon sequences
Seq C1 exon
CTGGCTGTGGGCTGACTTGCCTCCGACAGCGGATGGAACGAAGGCTGAAAGGGTCCCTGAAGATGCTCAGAAAGTCCATCAACCAGGACCGGTTCCTGCTGCGTCTGGCCGGCCTTGACTATGAGCTAGCCCACAAGCCAGGCCTGGCAGCTGGGGACCGAGCAGAGCTAGTGGAGGTCTGCCGACCCGGGCAGCACCGAGCAGGCACCAAGTGTG
Seq A exon
TCAGCTGCCCGCAG
Seq C2 exon
GGAACGTATTACCACGGCCAGACGGAGCAGTGTGTGCCATGCCCAGCGGGCACCTTCCAGGAGAGGGAAGGGCAGCTCTCCTGCGACCTTTGCCCTGGGAGTGATGCCCACGGGCCTCTTGGAGCCACCAACGTCACCACGTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000500-18-23,18-22,18-21-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=87.3)
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:
GACCGAGCAGAGCTAGTGGAG
R:
GCACACACTGCTCCGTCTG
Band lengths:
98-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]