Special

DreEX0066320 @ danRer10

Exon Skipping

Gene
ENSDARG00000063300 | si:ch1073-385i9.2
Description
si:ch1073-385i9.2 [Source:ZFIN;Acc:ZDB-GENE-131127-512]
Coordinates
chr16:52044859-52045762:-
Coord C1 exon
chr16:52045706-52045762
Coord A exon
chr16:52045248-52045307
Coord C2 exon
chr16:52044859-52044936
Length
60 bp
Sequences
Splice sites
3' ss Seq
GTTTATTCCTGCTGCTCTAGCTG
3' ss Score
5.82
5' ss Seq
CAGGTACTT
5' ss Score
8.17
Exon sequences
Seq C1 exon
ATGTTTAATCCGAATGCTGCTTTGCCTCCCGGCCCGGAGGGAACCCAGTCTGGAGAG
Seq A exon
CTGTCACGTTCTAGCTCAATGAGTTCTCTATCGCGAGAAGTGAGTCAGCATTTAAATCAG
Seq C2 exon
GCTCCTGCTCAACAACCAGTGCAAGGAGCTCCGCCTGCAGGGGGTGTGACCTTTTATAACCCCTCCCAGTTTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063300_MULTIEX1-1/2=C1-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

NonCoding

No structure available
Features
Disorder rate (Iupred):
  C1=NA A=NA C2=NA
Domain overlap (PFAM):

C1:
NA
A:
NA
C2:
NA


Main Inclusion Isoform:
NA


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTAATCCGAATGCTGCTTTGC
R:
TGTGCAAACTGGGAGGGGTTA
Band lengths:
133-193
Functional annotations
There are 1 annotated functions for this event
PMID: 27492621
Activation-induced alternative splicing of Sec16a (inclusion/exclusion of HsaEX0056828 and/or HsaEX0056829) controls adaptation of COPII transport to increased secretory cargo upon T-cell activation. Using splice-site blocking morpholinos and CRISPR/Cas9-mediated genome engineering, the authors show that the number of ER exit sites, COPII dynamics and transport efficiency depend on Sec16 alternative splicing. As the mechanistic basis, the authors suggest the C-terminal Sec16 domain to be a splicing-controlled protein interaction platform, with individual isoforms showing differential abilities to recruit COPII components. These work connects the COPII pathway with alternative splicing, adding a new regulatory layer to protein secretion and its adaptation to changing cellular environments.


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]