RnoEX0078972 @ rn6
Exon Skipping
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3859885-3861617:-
Coord C1 exon
chr3:3861540-3861617
Coord A exon
chr3:3860765-3860824
Coord C2 exon
chr3:3859885-3859962
Length
60 bp
Sequences
Splice sites
3' ss Seq
TGTGTTCTTGCTGTCCATAGCTC
3' ss Score
10.28
5' ss Seq
CAGGTACCT
5' ss Score
8.16
Exon sequences
Seq C1 exon
GTGGTAAGCTCTACAGTATCAGCCCCTGGGCCTGAACTCTCACCCTCCAAACCAGCAGATGGCTCCCAGGGAGGAGAG
Seq A exon
CTCTCGCGCTGTAGCTCTCTGAGCTCGCTCTCACAGGAAGTGAGCCGGCATTTCCATCAG
Seq C2 exon
GCTCCTGGAGACCACTGTCCTGCAGGGGCCACTCCTGGTGGGTCTGTGCCCTTTTACAACCCTGCGCAGTTGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.850 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSRNOT00000064083fB13060


Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACAGTATCAGCCCCTGGG
R:
GCAGGGTTGTAAAAGGGCACA
Band lengths:
134-194
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]