MmuINT0164484 @ mm10
Intron Retention
Gene
ENSMUSG00000026942 | Traf2
Description
TNF receptor-associated factor 2 [Source:MGI Symbol;Acc:MGI:101835]
Coordinates
chr2:25524340-25525148:-
Coord C1 exon
chr2:25524867-25525148
Coord A exon
chr2:25524518-25524866
Coord C2 exon
chr2:25524340-25524517
Length
349 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
AAGTGGTCTCTGCTCTGCAGGTG
3' ss Score
7.68
Exon sequences
Seq C1 exon
GTGGAGACTGAGAACCTGCAGGATCATGAGCTGCAGCGGCTACGGGAACACCTAGCCCTACTGCTGAGCTCATTCTTGGAGGCCCAAGCCTCTCCAGGAACCTTGAACCAGGTGGGGCCAGAGCTACTCCAGCGGTGCCAGATTTTGGAGCAGAAGATAGCAACCTTTGAGAACATTGTCTGCGTCTTGAACCGTGAAGTAGAGAGGGTAGCAGTGACTGCAGAGGCTTGTAGCCGGCAGCACCGGCTAGACCAGGACAAGATTGAGGCCCTGAGTAACAAG
Seq A exon
GTTTGTACTTAGCTGGAGTAGTAAGTCCTGGATCTTTGGCACCTGGACAGTGTCAAACCCGTCTACACTGCATGACTTGGGCTTTGGCCATCTGCTTTCTGAATCTTATACTCTGTGAGGCTCAGTCAGAGCATTTGGTTTTTGGCCTAGGAGGGTACAGCATCAGTCATGACACTGTGCTGGGGCTGTGGAGCTCCCGGGTGCATGTACATCCAGAGCCGTCCACGTGAACTTGGAACCTGTTCCTAACCCTGGGGACAGAAAAGACTCCAGAGGCTGGCAGTGGGGGAGGAGGGGGCTCAGGGCCACATCACATGACGGTCAGAGTTAAGTGGTCTCTGCTCTGCAG
Seq C2 exon
GTGCAACAGCTGGAGAGGAGCATCGGCCTCAAGGACCTGGCCATGGCTGACCTGGAGCAGAAGGTCTCCGAGTTGGAAGTATCCACCTATGATGGGGTCTTCATCTGGAAGATCTCTGACTTCACCAGAAAGCGTCAGGAAGCCGTAGCTGGCCGGACACCAGCTATCTTCTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026942:ENSMUST00000028311:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=PD(13.8=8.5),PF045827=Reo_sigmaC=PU(69.5=94.7),PF140731=Cep57_CLD=PU(67.0=64.9)
A:
NA
C2:
PF045827=Reo_sigmaC=PD(28.9=61.7),PF140731=Cep57_CLD=PD(30.8=46.7),PF0091721=MATH=PU(15.6=36.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACTGAGAACCTGCAGGA
R:
AACTCGGAGACCTTCTGCTCC
Band lengths:
354-703
Functional annotations
There are 0 annotated functions for this event
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