RnoALTA0035097-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000025278 | Scai
Description
suppressor of cancer cell invasion [Source:RGD Symbol;Acc:1594720]
Coordinates
chr3:23369768-23370682:-
Coord C1 exon
chr3:23370610-23370682
Coord A exon
chr3:23369839-23369985
Coord C2 exon
chr3:23369768-23369838
Length
147 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AACTCCCAGTCATTTCCTAGGTC
3' ss Score
3.9
Exon sequences
Seq C1 exon
AATTTTACAAATTTGTTTGGACAGCCACTCGTCTGCCTTCTTTCTCCCACGGCATATCCAAAAGCTTTGCAAG
Seq A exon
GTCAAATGCTAAGTGAAACTTCACACTGTCTTAGCAGTACTTGAACTGTTTCACTGTCTCCCTGACTGTGAATAGTGCTGATGTCTCTCTGTGGGAGATGGCATTTCACTGCTACTTCCCAGCCTGAAGCTCTGTCTGCTGACATAG
Seq C2 exon
TTTGACACAGGAAGTGATGGTCAGCACTTGAATGCCTGAGAGAAGCTGGAGACTTACACCGTTGTTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025278-29-25,29-24,29-23-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120703=DUF3550=FE(4.8=100)
A:
NA
C2:
PF120703=DUF3550=PD(2.2=60.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
ATTTTACAAATTTGTTTGGACAGCCA
R:
AACAACGGTGTAAGTCTCCAGC
Band lengths:
138-285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]