MmuINT1033662 @ mm10
Intron Retention
Gene
ENSMUSG00000026875 | Traf1
Description
TNF receptor-associated factor 1 [Source:MGI Symbol;Acc:MGI:101836]
Coordinates
chr2:34959475-34960887:-
Coord C1 exon
chr2:34960821-34960887
Coord A exon
chr2:34959514-34960820
Coord C2 exon
chr2:34959475-34959513
Length
1307 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
TTTTATCCCCCATTTTACAGATA
3' ss Score
10.36
Exon sequences
Seq C1 exon
TGTGAGAAGAGAGAGTGGATATGGGAGAAGAATTTGGGATAATTGCCAAGCTCATTTTAAAGCACAG
Seq A exon
GTCTGGTCTCAGTCCTTCCTGCCTCTCTAGCTTTAAGGTCTTGAGCAAGTCACTCAATTTATCTGTGCCTTGGACCCCTGGGCTATAGAGTAGGGGAGGGTCTCCAAAGACTGGAGGGAAATATTGACAAAATGTTTGTTAAAGTACTTAAAACGAGGCTGGAACTGTGGCTTGGTTAGCAAGCACTTGTACGCAGCCTTGGGTCTGATCCCAGTACTGAGAAAAACAAACCACTTTACAGGTAGCACCAGAGCAGCAGTGCCTGTTGTCTTAGCCCACAGCCGTGTGGGAGTATTCTAATGCTGGTAGCAGGAGCTGGGAGATGAGCTGGAGTGGGGGGGGGGGGGCGCCCGTCTAGGACAAGAGAAAAGGATCCAGAAGGTTGGGTGCTTCCCTTGTGTCCCAGTCGGAAAAGGAAAGGACATGTGGGGTGCAGGGGGTTGCTGGTCAGGCTGAGGACGGAGTTAAGGGAATGCCTTTCTGAGAGCAGGCAAGGAGATGAGAGATCATTAGCTGAGCAGGCTGGGGAGGATTCAGTTGGAAGTCTGTAGGATGGAGTAACCTCTTGGCCACTAGATGTCCTGGTGTCACCCCAGGCTTGGTAGACCATTGACTCTATCTAGAGACATAACAGAGTCTAACTTGACCTGACCACCTGGGAGAATCAAGGAAGCTGATAGATGCCAAAACACTGTGTAAGTGTCATTTGCCATTTTAAATCTCTCATTGTGAGAAACAAGAAGGGTGTGACCATCACCTGAATAAATTATCGAAGCTTTTGGAGCAGGTCACTTCAGTCAAGGCCCCTGCCACACCTTTGCCTACTGTGCCAGCTAGCTATAATGGTCAACTTGGCATGACCTGGGAAGGGAGTCTCAATGAGAGATTGTCTACATTGGGTTGGCCTGTGGGCACAAAGTGGGAGATTGTCATAATTGAGTTAATTGATGTGGGAACATCCAGCCCACTGTGGATGGCACCATTCCCTAGGCAGGGGGTTGTAAATTGTGTAAGAGTGGAGAAACTAAGCTGCGTGCAAAGGAGCAAGTATCCATGCATTTGTTTCCCTCTGTCCCTAACTGTGGATGTGATTTGACTAGCTGTTTAGAGTCTTACCTTGACTCCCCAACACACCCCATCAATGATGGAATTGAACCTGGAATTGTAAGCCAAATAAATTTCCTCTCACTTTGCTTTTTTTCGTCAGGGTGTTTTATCATAGCAAAAGAAATGAAACTGGAACACCATCTCATTTGATCACCTCAGCTACTGGGTAAAATAGACATTTTTTATCCCCCATTTTACAG
Seq C2 exon
ATACAGAAAGTGAGGCTCAGACATATTGAAGACCGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026875:ENSMUST00000113064:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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