DreEX6038589 @ danRer10
Exon Skipping
Gene
ENSDARG00000077866 | nostrin
Description
nitric oxide synthase trafficking [Source:ZFIN;Acc:ZDB-GENE-070522-2]
Coordinates
chr9:49162854-49167457:-
Coord C1 exon
chr9:49167412-49167457
Coord A exon
chr9:49163178-49163263
Coord C2 exon
chr9:49162854-49162937
Length
86 bp
Sequences
Splice sites
3' ss Seq
TGTGTGTGTGTGTGTTTCAGTAT
3' ss Score
10.62
5' ss Seq
AAGGTAACA
5' ss Score
8.92
Exon sequences
Seq C1 exon
ACGACCAGCGTGAGTGAAGATGAAGGACCCACTGAGCAGCTGTACT
Seq A exon
TATAATCTGCTGTATCAGGAGCTGAAGAGAATCTCTAAGAATGGAGAATTTTTCTGTAAAGAGCTTCTGGCTGTGTTTCAGCAAAG
Seq C2 exon
ATCTGAACTGGAGATCAACTATTCAAAAGGACTTCAGAAGATTGCAGGAAAACTTCTTAAAGTCTCCAAAGAGATGAGTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077866-'0-1,'0-0,1-1=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0061118=FCH=PU(32.5=93.1)
C2:
PF0061118=FCH=FE(33.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACCAGCGTGAGTGAAGATG
R:
TGGAGACTTTAAGAAGTTTTCCTGCA
Band lengths:
113-199
Functional annotations
There are 2 annotated functions for this event
PMID: 17570224
Exogenously expressed NOSTRINalpha is distributed over the cytosol and associated with subcellular membranes, whereas NOSTRINbeta (skipping of HsaEX0043381) is localized predominantly to the nucleus. Experiments in CHO cells.
PMID: 18980613
This study shows that nuclear import of NOSTRINbeta (skipping of CDS exon HsaEX0043381, inducing the use of a downstream ATG) depends on two nuclear localization signals (aa 32-36: KKRK and aa 57-61: KAKKK). Each of the sequences is independently functional, but both are required to sustain nuclear localization of NOSTRINbeta. Export of NOSTRINbeta from the nucleus is facilitated by a CRM1-dependent mechanism relying on the nuclear export sequence LELEKERIQL (aa 135-145). Unlike NOSTRINbeta, the full-length variant NOSTRINalpha was conspicuously absent from the nucleus. This is most likely because of the fact that its N-terminal F-BAR domain, which is truncated in NOSTRINbeta, facilitates association with cellular membranes. NOSTRINbeta directly binds to the 5'-regulatory region of the NOSTRIN gene (bp -200 to -1), and overexpression of NOSTRINbeta strongly decreases transcription of a reporter gene under control of this DNA region.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]