MmuINT0164548 @ mm9
Intron Retention
Gene
ENSMUSG00000026637 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr1:193821088-193823849:-
Coord C1 exon
chr1:193823679-193823849
Coord A exon
chr1:193821889-193823678
Coord C2 exon
chr1:193821088-193821888
Length
1790 bp
Sequences
Splice sites
5' ss Seq
TAGGTACGT
5' ss Score
8.17
3' ss Seq
TGTCCTGTGTTTCCTTCCAGTTC
3' ss Score
11.89
Exon sequences
Seq C1 exon
AGGCTCTCACCAGTCACACGGACAAGTCAGCTTGGCTGGAAGCGCAGGTGCGGCAGCTGCTACAAATAGTTAACCAGCAGCCAAGTCGACTTGATCTGAGGTCTTTGGTGGATGCGGTTGACAGCGTGAAACAGAGGATCACCCAGCTGGAAGCCAGTGACCAGAGATTAG
Seq A exon
GTACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGAAGCAGTCGGGTTCCCTCTCATGGCTTCCCTGTCTGTGTGCATTTGTGGTAGAAGCTAACAAGTCACAACCAGCTTTCTGGGTTGCCCAGTGGCTGAATCCTGTTTGTGAAGCAGCATGAGATTCTAGCTGCCTCAGAAAATGAGGGTCTCCACCATGTGTGTGGAGTCAGACGAGACTGAAATGGCCCAGGCAGTCCCAAGAGCTGGGAGTGGTAATCATTAAGAACAAGGGAGAGAGGTGATGGGTGTCTTAGGCTTTGGTGCACTGGGGCCAGTGAGATTGCTTAGCAGGTGATTTGCTATGCAATCGAGATGACCAGTGTATCAGTGGCTTCTCTGTTGCTGTGACAAAGCACCATGACCAAGGTAACTTGTAGGAGGAAGTGTTATTTGGGCTTATGATTGCAGAGAAATAAGAATTTACCACCATCTCATAGAGAAACAGCAGGCAGGCAGGCATGGCACTGGAGCAGCTGCTGAAACCCCAAGCCCAGTGACACACCTCCTCCAACAAGACCACACCTCCTCCAACTAGACCACACTTCCTCCAACAAGACCACACCTCCTCCAACAAGACCACACCTCCTCCAGCAAGACCACACCTCCTCCAACAAGACCACACCTCCAACAAGACCACACCTCCTCCAATAAGACCACACCTCCTAATCCTCCCCAAACAACCCACCAACTGGGGACCAAGTATTCCAATGCTTAGGACTTAGGACACACAACTCATTGAAACTATAACACCCAGAGTTTGATCTCTGGAACCCACACAGTGGAGAGAAAGAACCAACTATTGAAAGTTGTTCTATGACCTTCACATGTATACTATGGTGTACATGCCTTCACTTACACACACACACACACACACACACACACGCACGCACGCACGCACGCACGCACGCACGCACCACCAACAGTAACAACAATAACAATAATAATAAGACTTTATAAAGATATTTATTTATTTGTTTTATGTATGTGAGTACACTGTTGCTCTCTTCAGACACACCAGAAGAGGGAATCAGATCTGATTACAGATGGTTGTGAGCCACCATGTGGTTCCTGGGATTTGAACTCAGGGCCTCTAGAAGAGCAGTCAGTGCTCTTAACTGCTGAGCCATCTCTCCAGCCCCCATAATAAGTCTTTTAAATGTAAAATTCATTATAGGAGTTGGGGAGATGGCTCAGTAGATAACACACTTGCTGCACACATGACCTAGAATTTGGATCCTTGTAGCCATGTGATTGCTGAGTGGACTGGAGGGCTACCTGTGGTCCTAGCACTCTGGAGGCTGACACAGGATCTCCAGGACAAGCTAGCCAGAATATCAGGGTTTAATTCAGTGAGAGAACTACATCAAAAGACTGAAATACTACTGGGGAAGACACTCAGTATCAACCTCTGGCCTCTGTATGCCACAAGCACCTCACAGCCAAACACATGCAAGTATGCACAGACACTTACATCACAAGCACACTCGTGTGCATGCATGCACACACACACAAACACACACAGTTAGACGGGCACAAGGCTCAGCATGAGAATTCACTCGAGGTGAATGTCCAATGTGTCTTATACTCAGGCAAGCTGAGAGTGAAGAGGGAGGATACATCCATGTCTGCTTGGCGTCAGCTTACCACGATTGAGTTAATGTTAGCAATGCATGTAGTAGTTCACAGGTAGTGCTCAGATGACAGGCCCGAGCTGCAGCCTCCTGTCCTGTGTTTCCTTCCAG
Seq C2 exon
TTCTTTTAGAGGGGGAGACCAGCAAGCACGACGCACACATTAATATCCACAAAGCACAGCTGAATAAGAACGAAGAGCGGTTTAAGCAGCTGGAGGGCGCCTGCTACAGTGGCAAGCTCATCTGGAAGGTGACAGATTACAGGGTGAAGAAGAGGGAGGCCGTGGAGGGGCACACAGTGTCCGTCTTCAGCCAGCCTTTCTACACCAGCCGCTGCGGCTACCGGCTCTGTGCCAGGGCGTACCTGAACGGGGACGGGTCGGGGAAGGGAACGCACCTGTCCCTGTACTTTGTGGTGATGCGCGGTGAGTTTGACTCGCTGCTGCAGTGGCCGTTCAGGCAGAGGGTGACCCTGATGCTTTTGGACCAGAGCGGCAAGAAGAACCATATTGTGGAGACCTTCAAAGCTGACCCCAACAGCAGCAGCTTCAAAAGGCCAGATGGCGAGATGAACATTGCCTCTGGCTGTCCCCGCTTTGTGTCGCACTCTACTCTGGAGAACTCCAAGAACACCTACATTAAAGACGACACACTGTTCTTGAAAGTGGCCGTGGATTTAACTGACTTGGAGGATCTGTAGTGTTACCTGATAAGGAAACTTCTCAGCACAGGAAAAGGTGTGGCTGTCCCTTGGGCGCAGCCCTCTGGACTGAGCAGGCTCTTGTTCTTGTCTTCCTGCCTCCGATGTCTGATGTGTCATCTTTTTATCTTGGATCCTTCCCTGGTTTGAAACTTTAAACTCTTGAAATATTGCTGTTATTTATATTTTTGTATCTTCCAAAAAATTATAATAATTTGACAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026637-Traf5:NM_011633:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0314511=Sina=FE(24.9=100)
A:
NA
C2:
PF0314511=Sina=PD(26.6=32.1),PF0091721=MATH=WD(100=73.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTTGACAGCGTGAAACAGA
R:
CAAAGTACAGGGACAGGTGCG
Band lengths:
348-2138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: