RnoALTA0000616-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000058490 | AABR07044362.3
Description
NA
Coordinates
chr20:3138716-3140454:-
Coord C1 exon
chr20:3140325-3140454
Coord A exon
chr20:3138817-3138912
Coord C2 exon
chr20:3138716-3138816
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
CTCTGGTTGTACTTGCGCAGCAG
3' ss Score
4.25
Exon sequences
Seq C1 exon
CTGTGTTTCTCCTCCTCTTCCTCACAACAGCCACCACAGCTCCTATGATGGTCACAGCTCCAAGGACAACCAGGACAGCAATCATGGCTGTGTTGGAGACAGTGGATGGAGGAGCCTCTGGGAAGGACAG
Seq A exon
CAGGTTCTGAAGGCAAGTTCGGAAATTCTGGGTGTGCCTCTTGAATATCCGAGTCTCCTTCTTCCAAAACTCCGGCTCCATTCGTTCCACCCACAG
Seq C2 exon
CGCGCTCGGCTCCGCTCTCGGATTCTCCGCGTCGCTGTCGAAGCGCATAAACTGCGTGTCGTCCACGTAGCCCACAGCGGTGAACCGTGGCTCCCCGAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058490-2-5,2-4,2-3-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.318 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
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:
TCCTCTTCCTCACAACAGCCA
R:
CAGTTTATGCGCTTCGACAGC
Band lengths:
172-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]