MmuINT0164494 @ mm9
Intron Retention
Gene
ENSMUSG00000021277 | Traf3
Description
TNF receptor-associated factor 3 [Source:MGI Symbol;Acc:MGI:108041]
Coordinates
chr12:112481582-112486857:+
Coord C1 exon
chr12:112481582-112481749
Coord A exon
chr12:112481750-112486776
Coord C2 exon
chr12:112486777-112486857
Length
5027 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
TATTCCCTTTTTCTTTGTAGAAA
3' ss Score
9.48
Exon sequences
Seq C1 exon
GTGCACCTAAAAAATGAATGTCAGTTTGAGGAACTTCCCTGTCTGCGTGCCGACTGCAAAGAAAAAGTACTGAGAAAAGACTTGCGGGATCACGTGGAAAAGGCCTGTAAATACCGCGAGGCCACGTGCAGTCACTGCAAGAGCCAAGTGCCCATGATCAAACTGCAG
Seq A exon
GTGCGTTGCTGCCTGTCCCCATCCTCGGCTCAGTCAGGTGCACTTCTGCCGAGATGACGGAGATGACGCTTCTCTCGGGCAGAAAGGGGGAGAGGGCTGAATAGCAATTTTCATCTAACTCTATTTCAGAGGAAAGCTGTATTTGTTTTGCCTGTTTTGATTTATATGATTAACATTTTCCATTGCCTTGATTGGCTCATTTGAGATGTCAAAAAAAAATCAAGAATGGTGATTCAAAAAAGGTAGAATTTGTAACTTGTTCCAAAGAATAGCCTCAGATTGTGATGGAGCGCCTGTCTTCTCACAGCTGTGTGACCCACCATCACTCGCAGCAGGCGCGTGGCTCCTGCGGGCAGAGGCAGCTGTCCGTGGTGGAGAGAGGCAGGCTGGGAATGCTCTCCTGCCTCGTTGTTTGGCGCAGTCTGCTCTGTGCATGTGGTGGATCACCACGTCTGTGTGGAAGACTGAGGGCAGAGGAGCGATTTTAAAACAGTCGTTCACTGAGTAAACATTGGTTGTGTATCTACTGTGTGCCGTGATGTTCCAGGACATGGACTGCTTGCAGGTTGCTAAGAGGGGACTTAGGAAGTGTTAGGAGAGCTGGGAGTCCTGGCTAGGTATTGCTGAGAGGCTGAGCAGTTAGGGACCTCTCTTGATAAAAGTGCAGAGGTCATCAGCAGGGGGGCTCTGTAGCTAGGGCACAAGAGCCCTGGCTGAGTTTCTGGTGTCTGTCTTGGAACATGTCATGGCCACCGTGTAGGAGAGTCCCCACCCTGTGAGCTGAGGTATGTTCCACTCTACCATCTCAGGACTCCCTCCCAACCAGATGTGCCTGAGGCTGGGCCTCAAGTTACCTGAAAATACTTTTCTTATAGAATACCATAGACATTCCCAGTTACTGAGAGCTTTTAAGGACAGTGTCTTCCCCTTTGGGAAATAGCGTTAGAATGTGTCGTAGTTGAGCAGTGAGCAGTGAGCAGTGTGGTGAGTGAGACACTCAGGAAATGAGTGCTGTTCAGGCATTCGTGTTAGTGTTCTGCTGTCAGAAATGTGCCCTGCTCCTTGCAGAAAGCACTTATTTGCAGAGTAGAATCAAGTAATTAATTTTTATTTGAGAAGGAACTGAAAACATGTCAGTTAAATACCACGTAAATTGCCACCCCTGATCACCAGGCAAGACTGTAAGAGTCAGGAGGGCGCATGGTTAACCACGTGTTCACGACAAAGGCAATAACTTGATGTTATCCTCAGTCTGCAGCCTGAGGAAGGAGAACCAGGCACACAGTTGGATTTCTGTAGTGTGGAAAGACCTGTGACCGTAATGTGTACAAAACAGCAATAAGGAGGTCAGTCCGGGTGATAGGGAAAGTGAGAGAAGAGGCGGGGCTTAACTCATTAGGGTTTTTAATTGGCAGCCACAGATTGGAGGAAAGGAAGTTGGATGGGAAGGCAGTCTGAGACCTGAAGTTCCCTCAGAAATGGCTGCTCCTTGTAATGTCGGGCCCTTCTCGAGGGAAGCGGGCTGCAGGCAGCTCTGAGGTATCGCTAGGGTGCTTTTGTTTCCACTTTCGCTGTGTTTGCCTTACTAAGGATTGAGCTCAGGACGGTGCTCACAGGTCACTTTTTAATTGTTCTTATGTTAAGACAGGGTCCGATTGTCCTTGAAATCACCAGTTCAGCCAAGCTAGCTTTAAATTTGGCATCCTGCCTTTGGACCCTAAGCAGCTGGGGCACAGCATGTGGCACCATGACAGCCATTTGTTTTCATTCTGTTTTGAAATAGGCTCTTGTAAAAAATATATAAATTAATAAATAGCCCAGGCTGGTCTTAAGTTCACTGGGATGTCTATGACCTCCGGATCTTCCTGCCATCACCTCCTGGTGTGTGCCACCGCTACCTGCCTGGATTGTGTTCCCCTCTGGTTTTTAGTCCCTCACACCCAGACACCCATACCGAGGACTGAAGCCAGAGCACTGAGCATGCTGGACTAGGCAAGCACTCTGCCTGTAAGCTGTGAGTCTGTAGCCCGGCAGTGGTTCTAGCTACTGTGCACGTCTCACATCATGGCACGTTCCCCACTCAGTGACGCTCACAGTCCTGTCACTGGCAGAGCAGTGCACACTCACTTCTTAACAGAACTAGGAAGGTTCTGGGACTTGCTCTGGGCCTCTTCTTCTGTTTAGTGCCAGGATTACATCCCCAAATCTTTCTTTCTTTTTTTTTTTTTTAGCTCTAACATACTTAACCTCTCAGCTATGAAATGTGTCATACAGTACATAGCTTAGGACCTGTAACGCACACTGCATTGCCAGCTGGCAGTACATTACTGACAGTGTCTAGTGCAAGACCAAACTGCATACAATTCTTGTAGCAAGTCATATTTTAATAAAGTCTGAGAACAAGCCACGTGAAACTCTTGTGTTAGGCATAGGTAGACGTGTGATGAAACCTTTAGTTGGAGACAGAAATGCAGAGTCTTGCAGTGCTTTAGTGGTTACTTGATGGGTAAGCTTGAAGTGAGTGGAAAACGCTGATCATGTGCATACGTGTGCGATCAAATCTGTGTTGGTGCCAGGCTTGAGTGTGCACCTCCAGTCCAGGACTGCAGAGGCAAAGCTACACTTCTAGGTAACCAGTCTGCCTTCAGACCACTACGAAATGTATCACGCTTTTGTTGCGCTTTGTTTGAGGCAGAGTCTCATGTAACCCAGCTGCCCTAGAACTTGCTGTGTACATCAGGCTGACCCACTGAGAGCTGCCTGCATTTCCCAGGTGCTGGGATTAAAGGCGCACACCATACGCATGCGTTGCCTGGGTTTTGGTTTGTGTTTTCAATGGCGCATCCTTTCCTTTGGCTGTTACAGTACAGAGTTGCTAAATATCACGTGGCAGGTTATGGTAATATGTGGCAGGTTATGGTAATATGTGGCAGGTTATGGTAATATGCACCTCCCTCTTGTGACTTTCAGAGATACCTGGCACACATGTGGTGCACAGCCACACATACAAGGAAAACACTTATACACTAAGTAAATAAAATAAATTAAAAGAAAGTAGAATCAGACACCAAGCGGTTGGCCGGGCCATGTTGCCAGCAGCAGCCCTGAGAGAATGCTTTTCTCCCTCCCTAGGCTCTCTCGGTTGCCACTGACCCTTGGCTAGCGGCTACGGCACTCCTACTCTCGCTCTGTGTTTAGGTGACTAAGTGGTGGGAGCCCAAGTCCTTGCCTCTCTAAGAATGCCAGTCATGAGACATAGGGCCTTGTCTTAATTCACGACAGCTACAAAGACCCAGGCCTGGTAGGTCCATGCAGATGTTCTGAATGGGCATGGACAGTGTTCTGGGAGGACACTAGCAATCACTTTCCTAGGTAGAAGCCCTGGGCAGGCAGTTCAGTGAAAAGAAATGTTCATGATTGGTAATTCACAATCTCTGAGCTGCAGGATCCCACATTGTATCTTCCCATTAGGCTGTCCTAGATTAGAGAGTGTGGTAGAATTGATAAAATGCAGGACTATGCTTTCTGGCGATAATGGGATTCCAGACTGGGGTCAGGTTATTGGAGGGAAATTTGGCAACAATTCATCAAAATCTATCTTAAAGATGTGCATCCTTTGATGCTCTTAAAACCTTCTTCCGGATACTCTCATGTGTGCAGAAGTACATATGAAGATACTGGCGTTGACCTCCTAGCCTGTCCTACCCTACCCTCCCCTCCCCGCCCTGCTCACCTTATCTCCTCCAGTGCCATCCTGGGCTTCTCCTTCTACTCTGCCGATGTTGATGAGTCAACAGGCGAGTGTCCAGCCAGAGAACGAGGGTGGGTGAGTGTGGGTTCCAGGAGCCGGCAGAGTCCCTGTGATGCCTCTGCCATGTTTCAGAGTCCCATGCTGCTCTGTGGCCTTGTGGCCTTGGCTCTTGGGAGGGTGGTCTGCTCACACTTGGTTTACAGATGTGGTAGGTATCAGAGAAGCAAGGCACATTACTAGGGTTTTTCCACTGAAACATACAGAATGCCTTGACTTTGTGGTACTTAGAAACTCTGGATCCATGTTAAACCCCCCATGATGGGGTCCTGGTGCAGGCTGTCCCCTGAGAGAGGCCTATGATTAGGCTCTCCCTGTCCAGTCAGTAGAGAATGGTGGTGGACTTGCTCACCAGGTACTCTTGGAGACTCTGAGACCTGCTCTGCAGATGCAGGCTGCATACCTAGAAAGCCCAGGCCTTCAAGATTTCAATGAGATTGAGCCTGGTACCCTCACAGGTCAGTGCTCTCTGTTAAACACTTCCCTTGTGTGGCCACTGTCTTGGCTTTGTACCTGCCTCGTTAGACTGAGGCTGGAGCAAGTGTCATCGTCCATTTATACACCTGAAGACAAATGTCACTGAAGGCCCCAGGAACTAGACAACCTGCTGAGACTTGAAAGGGCCCCGGGGCCCTGGAGGGAGGACTGCTGAACGCCCCGCACCAGCGATGCTGCTGTGCTGCACTCCTGTCTTTGCCTCCATTGTGGGTCTCCTGCCGCTTTCTTGGGTCCTGGACAGGGCTCTTGCCCTTGCTTTGTCTGTGGAGCCCCAGGGACTGTACATTGCCAGGTGCCCCTGGCATTGAGATTACCAGTCCCTGTCTGTCTTCTACAGAGCTAAGAATCACACCAATGCAGTAGGCCTAGACCAAACTGTATCCATACTTGTGTACTAAAGATAATCTTGATAAGATTTCAGGACAGAATCCAAGAAACTGTGCCATTTCCTCGTGTTAAAGGGGTGTCTTGTTCAGACTCCACATTGAACATGGGCATTTGACCAACCCCAAATTGTCCATACGCCCTTGATCTGTGGTCAGATGCCACCAGCAGCATTGTTTACTAGTTCCTTGTGAGTAGGTCGTGCCCTGACGTCTCAAGGCTCCTGACTCTCATGCTCTGGACAGGCTTCCTTTGTCTCCATGTGGGAGAGCTGACGGGCAGCCACCAGGACGGGCTTTGGTGTTCCAGAGTTGCCATATTCCCTTTTTCTTTGTAG
Seq C2 exon
AAACATGAAGACACAGATTGTCCCTGTGTGGTGGTATCCTGCCCTCACAAGTGCAGCGTTCAGACTCTTCTAAGGAGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021277-Traf3:NM_011632:6
Average complexity
IR-C
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=PU(94.7=96.4)
A:
NA
C2:
PF0217613=zf-TRAF=PD(1.8=3.7),PF0314511=Sina=PU(15.9=40.7)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: