RnoEX0093186 @ rn6
Exon Skipping
Gene
ENSRNOG00000008145 | Traf3
Description
Tnf receptor-associated factor 3 [Source:RGD Symbol;Acc:1304633]
Coordinates
chr6:135701434-135705751:+
Coord C1 exon
chr6:135701434-135701514
Coord A exon
chr6:135704177-135704251
Coord C2 exon
chr6:135705659-135705751
Length
75 bp
Sequences
Splice sites
3' ss Seq
ACGTCTCTTTCCCGTTGCAGTTG
3' ss Score
10.22
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
Exon sequences
Seq C1 exon
AAACATGAAGACACGGATTGTCCCTGTGTGGTGGTGTCCTGCCCTCATAAGTGCAGCGTTCAGACTCTTCTGAGGAGTGAG
Seq A exon
TTGAGTGCACACTTGTCCGAGTGTGTCAATGCCCCCAGCACCTGTAGTTTTAAGCGCTATGGCTGCGTTTTTCAG
Seq C2 exon
GGTACAAACCAGCAGATCAAGGCCCACGAGGCCAGCTCCGCGGTCCAGCACGTGAACCTGCTGAAGGAGTGGAGCAACTCCCTGGAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008145_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=PD(1.8=3.7),PF041569=IncA=FE(11.9=100)
A:
PF041569=IncA=FE(11.0=100),PF101744=Cast=PU(0.7=4.0)
C2:
PF041569=IncA=FE(13.7=100),PF101744=Cast=FE(19.6=100),PF0205011=FliJ=PU(13.9=61.3),PF0149614=V_ATPase_I=PU(4.5=25.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTGTCCCTGTGTGGTGGTG
R:
CTTCTTCTCCAGGGAGTTGCT
Band lengths:
159-234
Functional annotations
There are 1 annotated functions for this event
PMID: 24671418
The noncanonical nuclear factor _B (ncNF_B) pathway regulates the expression of chemokines required for secondary lymphoid organ formation and thus plays a pivotal role in adaptive immunity. Whereas ncNF_B signaling has been well described in stromal cells and B cells, its role and regulation in T cells remain largely unexplored. ncNF_B activity critically depends on the upstream NF_B-inducing kinase (NIK). NIK expression is negatively regulated by the full-length isoform of TNF receptor-associated factor 3 (Traf3) as formation of a NIK-Traf3-Traf2 complex targets NIK for degradation. The authors show that T cell-specific and activation-dependent alternative splicing generates a Traf3 isoform lacking exon 8 (Traf3DE8) (HsaEX0066805) that, in contrast to the full-length protein, activates ncNF_B signaling. Traf3DE8 disrupts the NIK-Traf3-Traf2 complex and allows accumulation of NIK to initiate ncNF_B signaling in activated T cells.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]