MmuINT0164492 @ mm10
Intron Retention
Gene
ENSMUSG00000021277 | Traf3
Description
TNF receptor-associated factor 3 [Source:MGI Symbol;Acc:MGI:108041]
Coordinates
chr12:111239029-111242547:+
Coord C1 exon
chr12:111239029-111239080
Coord A exon
chr12:111239081-111242442
Coord C2 exon
chr12:111242443-111242547
Length
3362 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
CTAACTACTTTTCAATTCAGGTG
3' ss Score
7.87
Exon sequences
Seq C1 exon
CTCCTCCAGTCCAAAATGCACAGCGTGCCAAGAAAGCATCATCAAAGACAAG
Seq A exon
GTATGCTTACCCATTTCCTTCCTTCAGACAGAGGCTTGCTCTATAGTTCAGGGATCCCCAAACATAATGGACCTTCTTGCCCAGCCTCTGAGTGCAGGGGCACCACCCTTCTGGGCTTTTTAGATGGCTGACACATTTCACATAGCTTACGTTTGATGCTGTGTAAATCAGTTTATTTTTCTACTTGATTTATCATTGGGAGGAGGTGCATGCGTGCGTAGTGTTCACATGGATATCAGAGTACAACCTTGAGGAGTTCTGTCCTTCTTCCCTTAAGTGGGGTCTAGGGATCAAATGCAGGTTGCCAGGTTTGCACGGAAAGTGCTTTACCCTCCGGGCCACCTTGGTTTCCCATAGCTTTTGTACAATGCATTGAAGTTCAGTTTTGTTTTACTTTTAAAAATTAAGCTGGGTATGGTGTTGTACACCTTTAATCCCAGTACTCAGGAGGCAGAGGCAGGTGGATCTCTGGGAATTGGAGGCCAGCCTGGTCCTCATAGCAAGATCCAGGACGGCCAGGGCTATATAATTGAGACCTTTTCTCAAAAACAGTTATTACTTCCGTGGGGAGGTGAGGGTGGGAGTCTAGGTCAGGCTAGCCTTGAACTCACTTAGTAACGGAGGTCCTTCCTTCTCCGTCTCCCAAGGCCCAGGATCGCAGGTGTGCGCTCCCACATCTAGTTTCCGCAGTGCTGAGGGTCTTTCTCAGGGCTTCGGTGTGCTAGGTAAGCACACCACTAACTGACATACATCTCCAGTCCCTCGGGGTTGGTTGGTTTGCTTGAGATAGAGTTTTACTGTGCAGCTCTGGCTGGCCTTGAAATCCCAGAGATCTCTGCCTCCACACGTAGCAAGTCCCTTGGTTTTCCCCCCTTTGTTTTGATTTTTGAGATTAGAGTTTCCTATGTTGCCCAGGCTGGCCTGAAGCTCACGGCAGCCCTCCGCCTCAGCTCCTAGGATTGCAGCATGTTCCAGAACACTGACTTGCAGTTTTGTCAGTGGTGCAGCAGGCTCCACGGCCCAGCACGTGCTGTGTGAGCACCCGGGCAGACTGGGTGTGGAGGAGGAGCCAAACACAGCTTCAGCTGTGCCTCCTGCAAGGCGCACTGGCCTCTACTGTCCTCTAGCCTTAACAGTCTCAGTCTGACCTGTTCATGCCGTGGGAAGTCCTATTCGGAGTCTGTCCGGAGCTGTGAGAAGTGCTGAGGTGCCTGTTGTGGCAGAATCGCTGCCATCTTGTAGTTTTCTGTCTCATACAGCTTATACTCAACTTGGAGACACTAGCTTTTACCTCAGACATGCCAGTGGGAGGCTGTTTAAATGTGTTCTTGCTCCCCCTTACCAGTGTCTTGAAGTGTGTAAGCAATGAATGAGATCAGCTGCTGTGTGCCCACATGGCTGTCAGCATTGGCAAACTTAGAGTGGGGACCACTGAGGGGACCCTACCTTTTTCCAGAAGAACCTGATCCCTCCCCTTTTCTCTGGCACACGGCCACTCACAGACTGCTAAGCCCTTCCAGGTACATTTGTAGCTTGAAACAGCTCATTCTCAAGGACTTAAATATCAATAAAAATGCGTGTGATTCCAATATTTTGATTAATGAACCTAACAATTTTTAAGTGTAAGCTATTAAATTCCACACTAAGAATCTTGCTCTGGGGTTTCCTGTCAAAAGTATTTTCAAGTGCTGGACTTGCTGGTCAGGGCAGCCCAGGTGAGGCTGCTGGCCACAGGCCCTGACCCCTGGGCGCTAGGAAGAATGACCTCTGATGGAACTTGTTCTGGGTAGGAGCGGGGAGTCAGCCAGCCCTCAAGCTTTGTCTTATCAAACTGCTGCCGAAGACCTCAGTCACTTGTCACAAGAAGTAGGTCACAGCCTTTTCTTATTTATTTATTTTTTTATTATATGTAAGTGCACTGTAGCTGTCTTCCAGAAGAGGGAGTCAGGTCTCATTACGGATGGTTGTGAGCCACCATGTGGTTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAACAGTTGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCTAGCCTTTTCTTAAATGGCAGTGTGCCTTCCTTGTTCTCATGAATTGACAAGTGTGACGGAGAGAAAGAAGGTAAAGCTACAAGCTCAGGTACCTTTTAAAGTATCTCGGGCTCATTCCAGGCTGTCCTCAAACTCAGACTCACAGTCATTCTTCTGCCTTTGCTTTCTGAGCGCTGGGTCTAAAGGCAAATACTATGATACCAGCTTCCATCTTAAGTTTGAAACAGGGTCTGTCACTGACCCTGGGGCTTGCTGATTGGATAGACTAGCTGCCAGTAAGCTGCAGACCCTCCCACCCCCAGGGATTACAGGTGCATACCATCCCCCCAGGGGTTACAGGTGCAACCCCCCCCCCAGGGGTTACAGGTGCAACCCCCCCCCCCCAGGGATTACAGGTGCATACCACCACCCGTGACTTGTATGTAGGCGGCAGCACCAAAGCTCAGATCTTCATGCTTGCATAGCACGCACTTTACTGACTGAGGAGTCTCTGTTTTTAAAGCTTATCAGCCATTTGTTCTGTCTCTGCCTGGACATTTAGGAAGGACTAAGTTTTGATAGGTGGGAGTATCTCAAAAATGCCCGAGGACTAAGAGGCCATAGGCCGTTGTTAGAGACAGATTGCTTGTTTTCTAAGGGGAAATAAAATTAAAGACAAGCAGGTATTCATTTTGAGGAGAATAGTTCAGTCCCAGCTCATCCTCATAGCATTTATTTACAGCTTCCTTTGGACTGAGATGTGGCTCAGTGGTGGAATGTTGCCCTAGCATGCTCAAGGCCCTGGGAGTCCATCTCCAGTGCAAGGGAAAAGGGAAATTAAAAAGAAAAAGTCTTTGGTAAGAACTTGCACTAAGAGGAAACCAAAACTGTTTCGCACAGCGTTCTAAGACATCATGTCCACAGCTATCGGTCTGATTCTCTAAGCAGCATTCTGTATAGCGCATCAAGGAGCCAGCGTGTTGCCAAGTCCTGTGGTGAGAGGTGCACGCCAGGGCCATCTGCTCCTTGTTGGCTGGCAACTCAGGCCTACCTTGTCCAGAGGCCATGTGCTCAAAAATGTCTTCACCCCAACTGTCATTTGCTTACCTAATAAAAGATAGAGGTTAAGGCTATGTGAGTTAAATGGTGTCTCTTAGTGGGGCCAGCTCCTTCATTCTACTTATGGAAATTAAAATGGTCCTTAATGCTTTCTGAGGCCCACTTAAGAGTTGCTCTTAGGATCTTTAGAGTGGTTTAGCCTTGTCCAAAATTGCAACATGTGAAGATCAGGAAGTATTAATCCTCTAACTACTTTTCAATTCAG
Seq C2 exon
GTGTTTAAGGATAATTGCTGCAAGAGAGAGATTCTGGCCCTTCAGGTCTACTGTCGGAATGAAGGCAGAGGTTGTGCGGAGCAGCTGACTCTGGGACATCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021277:ENSMUST00000021706:4
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:
PF0009720=zf-C3HC4=PD(23.1=50.0)
A:
NA
C2:
NO
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:
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
- 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