MmuALTD0014717-1/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000026942 | Traf2
Description
TNF receptor-associated factor 2 [Source:MGI Symbol;Acc:MGI:101835]
Coordinates
chr2:25537071-25539084:-
Coord C1 exon
chr2:25538866-25539084
Coord A exon
NA
Coord C2 exon
chr2:25537071-25537149
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
GTTTCCTGTGTTCCCACCAGCTC
3' ss Score
8.69
Exon sequences
Seq C1 exon
GGCTTTGTGGTGTGTGGGGGTTGTAACTCACATGGCTGCAGCCAGTGTGACTTCCCCTGGCTCCCTAGAACTGCTACAGCCTGGCTTCTCCAAGACCCTCCTGGGGACCAGGTTAGAAGCCAAGTACCTCTGTTCAGCCTGCAAAAACATCCTGCGGAGGCCTTTCCAGGCCCAGTGTGGGCACCGCTACTGCTCCTTCTGCCTGACCAGCATCCTCAG
Seq A exon
NA
Seq C2 exon
CTCTGGGCCCCAGAACTGTGCTGCCTGTGTCTATGAAGGCCTGTATGAAGAAGGCATTTCTATTTTAGAGAGTAGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026942-11-6,12-6-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PU(74.4=46.0)
A:
NA
C2:
PF0009720=zf-C3HC4=PD(23.1=33.3)


Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCTGCAAAAACATCCTGC
R:
TAGACACAGGCAGCACAGTTC
Band lengths:
118-139
Functional annotations
There are 2 annotated functions for this event
PMID: 9461607
The authors describe here the identification and characterization of tumor necrosis factor receptor (TNFR)-associated factor 2A (TRAF2A), a splice variant of the TRAF2 molecule utilized for signal transduction by members of the TNFR family. TRAF2A and TRAF2 cDNAs are identical in sequence with the exception of an extra 21 base pairs of sequence encoding a 7-amino acid insert (via use of HsaALTD1017566-2/2) within the TRAF2A RING finger domain (TRAF2 uses HsaALTD1017566-1/2 instead). TRAF2A protein is capable of binding to the cytoplasmic domain of TNFR2 (p75) and is detectable in T-lymphoma cells stably transfected with the TRAF2A cDNA. Unlike TRAF2, TRAF2A has a short half-life ( approximately 100 min) in these cells and is expressed at only low levels in transiently transfected COS-7 cells. However, TRAF2A levels in transiently transfected COS-7 cells approach those of TRAF2 upon coexpression with TRAF1 and/or TRAF2, indicating that TRAF2A stability is regulated by the binding of other TRAF family proteins. Also in contrast to TRAF2, TRAF2A is unable to stimulate NF-kappaB activity when overexpressed in 293 cells and acts as a dominant inhibitor of TNFR2-dependent NF-kappaB activation.
PMID: 9733779
TRAF 2A, a TRAF 2 splice variant with an altered ring finger (contains 7 additional amino acids (due to use of alternative splice site donor, HsaALTD1017566-2/2), is a specific activator of JNK, whereas TRAF2 (uses HsaALTD1017566-1/2) activates both NFkappa B and JNK pathways.
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