RnoALTA0035359-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000018876 | Sdccag3
Description
serologically defined colon cancer antigen 3 [Source:RGD Symbol;Acc:1305930]
Coordinates
chr3:3833819-3834186:-
Coord C1 exon
chr3:3834052-3834186
Coord A exon
chr3:3833927-3833968
Coord C2 exon
chr3:3833819-3833926
Length
42 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
GCTCTCGTTGTCACTTACAGCTC
3' ss Score
9.17
Exon sequences
Seq C1 exon
GGATGAGGCAGGGGCTGGCGACGGCGTTGTGGGCCATGGGGCCGCGGCCGGGTTAGGGCGCGGCGATGTCGGGCTACGCGCGGCGGCAGGGCGCGCCCCCACTATCGCGGACGCGGAGCCTCGTAGTTCCCGACG
Seq A exon
CTCCTGCGTTCTATGAGCGCCGGTCTTGTCTCCCCCAGCTAG
Seq C2 exon
ACTGTGAACGCCCCCATGGCGGGGACCTGCACCCCCAGTTCTTCGGCTTTCGGCCGACGTTTATGTGCTATGTGCCCAGCCCGGTGCTGGCTTCGGTAGGAGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018876-0-2,0-1,0-0-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.039
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping 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:
CCCCCACTATCGCGGACG
R:
TGTGTCTCCTACCGAAGCCAG
Band lengths:
147-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]