MmuINT0164488 @ mm10
Intron Retention
Gene
ENSMUSG00000021277 | Traf3
Description
TNF receptor-associated factor 3 [Source:MGI Symbol;Acc:MGI:108041]
Coordinates
chr12:111255223-111260811:+
Coord C1 exon
chr12:111255223-111255363
Coord A exon
chr12:111255364-111260636
Coord C2 exon
chr12:111260637-111260811
Length
5273 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TAACCCCTTTGGTCTGGAAGCGG
3' ss Score
2.11
Exon sequences
Seq C1 exon
GTTTCCCTGCTGCAGAATGAAAGTGTTGAGAAAAACAAGAGCATCCAAAGCCTGCACAACCAGATCTGCAGCTTTGAGATCGAGATTGAGAGGCAGAAGGAGATGCTCCGAAACAACGAGTCCAAGATCCTTCACCTGCAG
Seq A exon
GTGAGCGGCTGGGCCAGGCCCTCGCTTGCTGTGTGCACCTTCAGGTACAGCCTGGGTCAGCATGGCCCTGCCTGGGAAGCATGGCCTGGGTCAGCATGGCCCTGCCTGGGAAGCTGACCCAGCTCTCACTGGAGCAGGTGAAGCTTAAAGATGCGATGTAAAGATGGTCTGTTCTGGATGAGGTGTTGCTCAGAGGCAGGCATTTCTCTCGTTTGTGCAAGTGCCTAGCTTCCATCCCCTACGTTGCAAAAAAGGAGAGCGAGAGAGAGTAGAATCTGTTTTTATTACTATGCATTGATAAGAGACATTGCTCATAAGGACTTGTGTGCCAAGGACTGGGGTGAAATCAAGCCAGACTGCTCGGTTCTGAGTTTCCCACACACATTCCAACTTTATTTCAGATAATAATCCGGAAATACCCCCAAACAGCAGACGCATAAACCTTTGCAGGGCCGGACAGTTACTTCTGTAACTAAGAGCACTGCTGCTCTTTCAGAGGACAGAGAGAGGTTTGACTCACAGAACCCGCATGGTGTCTGTAACTCCATTTCCAGGGACTCTGGTGCTCTCTCCTGGCCTCCATGGTCACAGCAGGAATGTGGTGCTGAAAGGGTTAAAGGAAGTAGAATTGATACTTTTGTACAGTTTTGTACTTTTGATACTGTTGTGCGTTTTGCTGGCCCAGGAAGTGTTGTTCTTTGTCTTTTTTAGTATTTTCATTCCATTGTGTGGCAAGGTACACATGTGCCACAGTGTACGTATGGGGGTCAGAGGGTGGGGGTCAGAGGGAGTTCTGCAGATCTCTTTAGTTCTCTTTCCAACATGTGAGCTCCAGAGATCAAATACAGGTCTTCCGGCAGTGAGCTTTGTAGCACTTGAACTGACTGAGCCTGAAGGATCGTCTCTTAATAGAATTTTAAAGAACACACACACTAAAAAAAAAAGAAAAGGTGTTAGTCTAGGTTTTGAACCCCCAACCACTCCAAGTGCTGGGATTGAACCCAGGTCCTTGAACAGGCTAAAATACACTTCTGTTTACTTTGTATTTTGAGACAGGGCTGCACTAAGTTGCCTAGACTGGCCATCAACATGTCATAGCCTGGGCTGGCCTTGAACCTGTGATCCCCTTTCCTCAGCCTCTTTAGTAGCTGGCATTATGCTGGGTGGTGGTGGCGCACACCTTATTCCTAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGACAGCCTGGTCTACAAAGTGAGTTCCAGGGCAGCCAGGGCTACACAGAGAAAACCTGTCTCAAAAAAACAAAAAAACAAAACAAAAAAGTAGCTGACATTACAAAGCCAGGTATGGTGGTGCACGCCTCTAATCCTGGTACTCAGGAGGCAGAGACAGGCGGATCTCTGAGTTCAAGGACAGCCTGGTCTTCAGAGTGAGTTCCAGGACTGCCAAGGCTACACAGAGAAACCCTGTCTTAAAAAATAAGAAAAAAGAGAAGAGGAGAGATTACAGAGCTTTCCCCCAAACCTAGCAAACCATCTTTTCTTTATCAAAAATGGTAGCTGTGGGGTTGGAGAGATGGCTCAGCAGTTGAGAGCATTGGCTGCTCTTCCAGAGGACCAGGGTTCAGTTTTCAGCACCCACATAGCAGTTCACAGTTGTCTTTAACTCCAGTTCCAAGGAAGCCAACACTCATACAGCATATATGTGGGCAAAACACTAATGCACATAAAATAAAAATAAATCATTAGGGGCTGGAGAGATGGCTCAGTGGTTAAGAACACTGACTGCTCTTCCAGAGGTCCTGAATTCAAATTGCAGCAACCACATGGTGGCTCACAACCATCCGTAATGAGATCTGATGCCCTCTTCTGGGGTGTCTGAAGATAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTTTTAAGAAATAAAATAAATCATTAAACTAAAGTATTGCCTGGATGAAGAATCCAAGGCTAACAGGGCAATTTAGTGACACCCTGTCTCAAAACTAAAAGGGCTGAGTATATAGTTCAGTGGTAGTGAGTTTACCTAGCATGCCTAAGGCACTGGGTTCCATCTTGAACACTTTAAGGGATATTGGGGGGTGGGAAGAGGAGAGGAAGGGAGGCAGAGAGACAGACAGAGAGAATATGTGTGTGTGCTGAGAAGTGGCTTAGTGGGTAAAGGTGCTTGTCGATACAGCTGACACCTTAAGTTCAGTCCTCAGAACCCATGGTAGAAGGGGATAACTGACTCCTGTATATGTGCGGTCACACACACACACTGAAAGAGCAAAAAGACAGGTTTTTTGTGTAGTCCTGGCTATTTGAGAGGCTGAGGCGGGAGGACCTCTTGAGTTTGAACAGCGTAGTGTGATCCCCGCCTCAGAGAAGGGGTGGGAAGGGAAGGGAAGCAGCGCCGAGTCCTGAGCTGAGCCACACGTGCTGCTGCCAGTTGCTGAATGACCCAGAGGTTCATGCCATGGGCCTCACTCTGGTGAGCAGCCACAGCCACACTCTCACTGAACAGGCTTGTGCGGCCAGAGCCTAGTGACCTGAAGGTGACAAGGGACAGCAGAGGACAGTCACCAGAGTCCTGAAGTTGTAGTGTATGCAGCTGGTCATCTGAGGCCCTGAGAACAGGCCTGAGTTGGGGTTATTTCTTGTGTGTGAGGCAGTTGCTTCCCAGCTTCTGAAGCTGTAACTGAACCCCACGCTGCACGTAGGCTGCGCATTTATAGACACACTGGTGGCTCAGATCACCAAGTGTCCCAAGCACTCGGTCATTGGCTGGTCACAGAGAAGGCTTGACACAGACCTGTACTCTGCTTTGACACTCTTGTTTATGCAATGAAGGGTCTCTCTGAAAAACAGCACAGTCCCTTGCCAGGATGCTCCCCTAGTTGTGTGGGGAGCCCACTGTGTGGAGCATGTACCTGCACACAGAGTGCATGCCCTGGTCTCTGAGTGGGCTAGCAAACACCAACGCGATGCCCCGTACTAGTTGAGAGAGCTTCACAGCCAGTGCAGTGGCCCTGTCCCCTCCTATGCATGTCACCAGCTGTTGGGGAGGAGCAACTCAGGGCTTCCTCGCTGGCCCTTTAAGCAAACACCACCTCTCATACCATGGCCGTGCTTTTCTTTCTTACCAGTGCCCGTGACAGTTGGCTTTATGGGGGCAGTGCATTCAGGGACACCAAACTGTGGGTCGTTAAAGTCAGTACAATTGGCCCACAGAGAACAGTTCTTATGGAGTCAAATATCCCTCTGGGTATACATTCTTGTTTAAAATAAATAGACGGGGCTGGTGAGATGGCTCAGTGGGTAGGAGCACCCGACTGCTCTTCCGAAGGTCCGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAACAAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTTCAAAAAAAAAAATAAAATAAAATAAAATAAATAGACATGGGGGTGGAAAGGTGGCTCAGCCATTAAGGCTAGGCTTACAACCAAAAATAAAATAAAGATATCTACATAGCAGGTTTTTTAAAATTGAAGACCTTATCTATGCTATGTCTGTGGGTGGTGTATATGTGCACATGTATATACACATATGTCTGTGGGGGGTGTATATGTGCACATGTATATACACATATGTATGCCCAGAGGGTGGAAGAAGATGTCAAGTGTCCTGGTCTGTCACTCTACCGTATTCCTTTGAGAAAGGGTCTCTCATCAAATGGGAGCTACGCTGGTGGCCAGAAAGCCCTACAAAGCTGGGTAACAAGTAACATACAGCCATCTCCAACCCTTTTCATGATCTCTGAGATTTGTGTTGGCACAGTAAGTAATCTTACGTGCCGAGCCATCTCCTTGCCCCCCACCTCCCAATCCTTCTGAAATATCAGTGTCAGGCTTCTTGAAAAGAACGGGGAGATTCAGGTTAGCCTTGTGCTCTGTGAAGGACTCCAGACCTGCCTCCTTCATTCCTTCCTGGTTGGTCACAGCCAACAAAGATACAGAAACCCAGCATTTCAAATACAGACTTCCAAAAGAAGTGAAGGCGGTAGGCTGTGCCCTGAGCACCCTGTGTGACCAGCGACTTCAGAGCTATTCTACTGCCTCTGCAGCTCTTATAGAGTCTTTGCATGAACGGAAACTTCAGGTGCTTGACTCCATCTCAGGGAGACAGTCAGGCTGGAGCACAGGACTCTCCCCATTACTGTCACGGGAACACACAGCCCTTTAACACCCAACTGGAGCACCAGTCTCTGGTACCATCACAGGTAGGATGGTGTGTTTCTATAAAAAGCTCTTCTGAGTTACTTAGTTAAGACAGTGCAGAACTGGCTCTTGCTGTTGGCAGGCCAGTGTCAGGACATATATCCTGGTGCCCCTGAGTGTAGAACTTACTCTCATGGGCTAGGCCCTCTCTGGCCACTAATACCCAGAGTCTCTGGTAGAGGAAGGATAGAGGGAGCTCTTTGTTTCCCTGGTCCTTGGCACAGTTCTAAGGTCCCCCTCTAGTCACAGGACAGAAACATTCTGTCATGAGCCAGGCAGCAGGACAAGCAGATGGTGCCAGGTCATCATTGTGACTCCCTCATCCTAACCTCTGATTGATAGGGGCCAGAGGTCTTGTGCCCTGAGAATCCTCACTAGTCAGATGAGACTTTGACCTCAGTCCCATTGGCCTTCTATGGTACCCGAGGTGACAGGGAGATGACATCTGCGAGTGTGAGGATATGGTCACAGCCAGGGTTCTGAAAGGAGAGTGTATGACATTGATGTGATGTCTGACTGCAGTTATGTGACAAACAGGCAGTTTGGCCATCCCAGAAATGGCTTAAGTTGGGGAAGCCGTTTAAGAGCTATGGGCAGGGAAATGACTACTCTGGGCCATGTGCACACTGTGGTGTTGGGTGTCGTCCCCTTTCATCTGATCCATCCAGCCCTTCTCCTGGTGACTTGAAACACAAATGCAGGCTGGAAGGGGTGTCACACTGCCGGGACTCTTACGTGAAACAGGTCTCCATCTGGCTGTTAACAGCTTCACTCTGTTCTACAGAAGTTCCTATCCCCAGAGACTCCCAGGAGGCGGGTGGGTCTCAGCCAGTGGGTACCGCACGGGGATGACAGCTCCAGCTTGCATTTGGGGTGACAGCACAGCGTGCTCAGAGTCTGACTGGCTTTTATCCTTAACCCCTTTGGTCTGGAAG
Seq C2 exon
CGGGTAATCGACAGCCAAGCAGAGAAACTGAAAGAACTGGACAAGGAGATCCGTCCCTTCCGGCAGAACTGGGAGGAAGCGGACAGCATGAAGAGCAGTGTGGAGTCCCTCCAGAACCGAGTGACTGAGCTGGAGAGCGTAGACAAAAGTGCGGGGCAGGCGGCTCGCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021277:ENSMUST00000021706:10
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=0.034
Domain overlap (PFAM):
C1:
PF101744=Cast=FE(30.1=100),PF0205011=FliJ=FE(34.1=100),PF0149614=V_ATPase_I=FE(26.0=100)
A:
NA
C2:
PF101744=Cast=FE(37.9=100),PF0205011=FliJ=FE(43.0=100),PF0149614=V_ATPase_I=FE(32.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- 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