Special

MmuEX0048696 @ mm10

Exon Skipping

Gene
Description
TNF receptor-associated factor 3 [Source:MGI Symbol;Acc:MGI:108041]
Coordinates
chr12:111248566-111252756:+
Coord C1 exon
chr12:111248566-111248646
Coord A exon
chr12:111251130-111251204
Coord C2 exon
chr12:111252664-111252756
Length
75 bp
Sequences
Splice sites
3' ss Seq
ATGTCTTTTTCCCGTTGCAGTTG
3' ss Score
10.16
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
Exon sequences
Seq C1 exon
AAACATGAAGACACAGATTGTCCCTGTGTGGTGGTATCCTGCCCTCACAAGTGCAGCGTTCAGACTCTTCTAAGGAGTGAG
Seq A exon
TTGAGTGCACACTTGTCCGAGTGTGTCAATGCCCCCAGCACCTGTAGTTTTAAGCGCTATGGCTGCGTTTTTCAG
Seq C2 exon
GGTACAAACCAGCAGATCAAGGCCCATGAGGCCAGCTCCGCGGTACAGCACGTGAACCTGCTGAAGGAGTGGAGCAACTCCCTGGAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021277_MULTIEX2-2/3=1-3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

Show structural model
Features
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.052
Domain overlap (PFAM):

C1:
PF0217613=zf-TRAF=PD(1.8=3.7)
A:
PF101744=Cast=PU(0.7=4.0)
C2:
PF101744=Cast=FE(19.6=100),PF0205011=FliJ=PU(13.3=58.1),PF0149614=V_ATPase_I=PU(4.5=25.8)


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
Zebrafish
(danRer10)
HIGH PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATTGTCCCTGTGTGGTGG
R:
TTCTTCTCCAGGGAGTTGCTC
Band lengths:
160-235
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]


SPECIAL DATASETS

  • Pre-implantation embryo development
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types