RnoALTA0038808-2/4 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7228473-7228959:-
Coord C1 exon
chr16:7228837-7228959
Coord A exon
chr16:7228518-7228520
Coord C2 exon
chr16:7228473-7228517
Length
3 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
GCTGATCCTCGATCCCCCAGGAG
3' ss Score
7.64
Exon sequences
Seq C1 exon
AACAATGGAGGCTGCAGCCCTTATGCTGTGTGCAAAAGCACAGGAGACGGACAGAGGACATGTTCCTGTGATTCAACTCATACTGTGGGGGACGGCATCACCTGTCATGGGCGAGTTGGACTG
Seq A exon
GAG
Seq C2 exon
CTCCTACGGAACAAGTATGCCTCGTTCTTCAGCCTCCACCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434-49-56,49-55,49-54,49-53-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129472=EGF_3=PD(89.5=82.9)
A:
NA
C2:
PF0246917=Fasciclin=PU(9.2=68.8)
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:
AACTCATACTGTGGGGGACGG
R:
CAGGAGGTGGAGGCTGAAGAA
Band lengths:
94-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]