RnoALTD0024504-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000018486 | RGD1311084
Description
similar to 1700113K14Rik protein [Source:RGD Symbol;Acc:1311084]
Coordinates
chr3:9632128-9635211:-
Coord C1 exon
chr3:9635150-9635211
Coord A exon
chr3:9635103-9635149
Coord C2 exon
chr3:9632128-9632240
Length
47 bp
Sequences
Splice sites
5' ss Seq
GTTGTGAGT
5' ss Score
6.59
3' ss Seq
AAGACTGTGATCATTTGCAGCCC
3' ss Score
5.44
Exon sequences
Seq C1 exon
GGACCAACCATTGAACTGGGACGACAGTTTTAGAGAGAAGACTACCCTGGGGCTCCCAAAAG
Seq A exon
GTGAATTCGTCAGAGCCAAAAAGGCCCATCCGTGAGTAGTAGCTGTT
Seq C2 exon
CCCCTCTGGAGAAGGCTCAAGACCCCGCAGACGGTATTGTCCTTTCCGGGTGCGATTCGCAGACGAGACCTTGCAGGATACAGCACTCCGGTACTGGGAACGTAACCGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018486-2-8,3-8,4-8-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.266 A=NA C2=0.231
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
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:
ACCAACCATTGAACTGGGACG
R:
GCTGTATCCTGCAAGGTCTCG
Band lengths:
144-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]