RnoALTA0032316-4/5 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000018486 | RGD1311084
Description
similar to 1700113K14Rik protein [Source:RGD Symbol;Acc:1311084]
Coordinates
chr3:9630400-9630819:-
Coord C1 exon
chr3:9630654-9630819
Coord A exon
chr3:9630467-9630538
Coord C2 exon
chr3:9630400-9630466
Length
72 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGG
5' ss Score
4.44
3' ss Seq
GGCTCCTCTCCCCTCACCAGGTC
3' ss Score
9.48
Exon sequences
Seq C1 exon
TCCGGCAGAATATCTTACCGAGCGAGCAGACGGCTTTGCCAGCTGTATCTGTGTCAGAGCGAGTGCTTGGGAGTGTTGGGAGATGGTTGGACAGTCTGCCCAGAGCCCTTCAACCCAGGGTCCAAGACACCGCGGCTAGCTCCTCATGCTGGAACTGCCCCCGCGA
Seq A exon
GTCAGCTCAGGAACCACAGCTCTACCTTTCTGAGGATGCCACCGTGAGCAGCCGCCTACCCTTCATCTCCAG
Seq C2 exon
GGCCACCGCCCCAAGGCCAAGGGGAGGCCTAAGAACCTTCCTGGACACCCCTAACAATCCGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018486-11-16,11-15,11-14,11-13,11-12-4/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.232 A=NA C2=0.542
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
GCTTGGGAGTGTTGGGAGATG
R:
CTGCTCCGGATTGTTAGGGGT
Band lengths:
169-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]