RnoALTA0000006-4/4 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211246068-211247465:-
Coord C1 exon
chr2:211247300-211247465
Coord A exon
chr2:211246135-211246167
Coord C2 exon
chr2:211246068-211246134
Length
33 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CTTAATTTGCCCCCGTGCAGCAG
3' ss Score
6.19
Exon sequences
Seq C1 exon
ATTAGAATACAAATACTCCAAGCTGGTAATGAATGCTACTCTTAAAGACTGCGACCTGCCAGCAGCAGACAGCTGTGCCATCATGGAAGGGGAGGATGTGGAAGACGACCTCATCTTTACCAGCAAGAAGTCCCTCTTCGGGAAGATCAAATCCTTTACCTCCAAG
Seq A exon
CAGCCAGTTCCTGTCACCATCTCTCTTTCAGAG
Seq C2 exon
GACTCCTGATGGATTTGACTCGGTGCCACTGAAGACATCTTCAGGAGGCCCAGACATGGACCTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272-37-32,37-31,37-30,37-29-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.136
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
ACAGCTGTGCCATCATGGAAG
R:
GTGGCACCGAGTCAAATCCAT
Band lengths:
127-160
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]