RnoALTD0029405-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000013934 | St5
Description
suppression of tumorigenicity 5 [Source:RGD Symbol;Acc:1308995]
Coordinates
chr1:174234319-174289700:-
Coord C1 exon
chr1:174289600-174289700
Coord A exon
chr1:174289448-174289599
Coord C2 exon
chr1:174234319-174234408
Length
152 bp
Sequences
Splice sites
5' ss Seq
TAGGTGCGG
5' ss Score
5.42
3' ss Seq
TTGTTTTTTCTCCTTTGCAGGCA
3' ss Score
12.58
Exon sequences
Seq C1 exon
GCCGCCCGCCCTCTCTGCGGGAGCAGTCTCCCTCCTCTGGGCTGTGCGGCGCCCGTGGAGCTCAGACTGTGCGGAGCTCCCGGCAGGCTCGGGCGGAGGAG
Seq A exon
GTAAGTGGCTCCCGGTCACTCAGGAGTCGCTGCTTCTGCTCCCCGCCCGGTGGCGGGCGCATAGGACTCGGACTCCGGTTCTGCGGCTCACCAAGCCCTTCCATTTTCTCTACTCCAGGCCCAGGCAGGGGCTCCTGCTGCGTGAGTACTAG
Seq C2 exon
GCAGACAGGAGACTGCTTAGGCTCTGGCACTAGTACCATGGGACCCTGTACTGGTTAAAAGCCGGCTCCAGGACCTGAACAGACAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013934-2-3,3-3,4-3-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GAGCAGTCTCCCTCCTCTGG
R:
TTGTTGTCTGTTCAGGTCCTGG
Band lengths:
170-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]