MmuINT0164546 @ mm9
Intron Retention
Gene
ENSMUSG00000026637 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr1:193878231-193881095:-
Coord C1 exon
chr1:193881021-193881095
Coord A exon
chr1:193878324-193881020
Coord C2 exon
chr1:193878231-193878323
Length
2697 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
GCTTTTGTTTTGTGTTGAAGGGT
3' ss Score
7.53
Exon sequences
Seq C1 exon
GTGAATGAACACCTTACTGTATGTCCTGAGGCTGAGCAAGACTGTCCCTTTAAGCACTATGGCTGCACTGTCAAG
Seq A exon
GTAAGCTGTGGGTCACCTTCATCTCTGCCTCTACAGCTCACCGGTGAGTTGATTTTATTCTTTAACTCTCTTCAGGAACGGGAAAGGTAGACAGACACCAGAACACTAAGGCTAAAATGGTGTTGGGGCTCACCGGAGAAACAGAACTTCTACATACATACATTTTTAAAAAGTATGTATTATGTTCATATATATGCTCACATAGATGCATGGAGAGACTCATTCTGCCATTGTGGAGTTTATATGCACCACATCTGTAAGCCAGCCCAGCATTCTGGACACTTCAGACTTTTCACCAGAGACTATGAAAGCTAGAAGATCCTGGGCAGATGTCATACAAACCCTAAGAGAACACAAATGCCAGCCCAAGCTACTATATCCATCAAAACTCTCAATTACCATAGACAGAGAAAACAAGATATTCCATGACAAAACCAAATTTACACAATATCTTTCCATAAATCCGCCCTACAAAGGATAATAGATGGAAAACACCAACACGAGGACGGAAACTACACCCTAGATAAAGCAAGAAAGTAATCTTTCAACAAACCCAAGAGAAGATAGCCACATAAACATAATTCCACTTCTAACAACAAAAATAACAGGAAGCAACAATCACTATTCCTTAATATCTCTCAACATTAATGGACTCAGTTCCCCCCAAAAAGACATAGACTAACAGACTGGATATGTAAAAGGACCCAGCATTTTGCTGCATGCAGGAAACCCACCTCAGTAACAAAGGCAGACACTACCTCAGGGTAAAAGGTTGGAAAACAATTCTCCAAGCAAATGGTCCTAAGAAACAAGCTAGAGTAGCCATTCTAATATCAAATAAAATCAACTCTCAACCAAAAGTTATCAAAAAAAGATAAGGAAGGACACTTAATACTAGTTAAAGGAAAAATCTACCAAGATGAACTCTCAATTCTGAACATCTATGCTTCAAATGCAAGGGCACCCACATTCATAAAAGAAACTTTACTAAAGCTCAAAGCACGCATCACACCCCAGACAATAATAGTGGGAGACTTCAACACCCCACTCTCAGCAATAGACAGACCATGGAAACAGAAACAGAGACAGAGTGAAACTAACAGAAATTATGAACCAAATGGATCTAACAGATATTTATAGAACATTTCATTCTAAAGCAAAAGAATATACCTTCTTCTCAGCACCTTATGGAATCTTCTCCAAAATTGACCATATAGTTGGTCACAAAACAGGCCTCAACAGATACAAGAAGATTGAAAAAATCCCATGCACTCTACCAGATCACCACGGACTAAGGCTGGTCTTAAATACCAACAAAAACAACGGAAAGCACACATACTAATGGAAGCTGAACAATGCTCTACTCAATGATAACTTGGTCAAGGAAGAAATAAAGAAAGAAATTAAAGACCTTTTAGAATTTAATGAAAATGAAGACACATCATACCAAAACTTGTGGGACACAATGAAAGCAGTGGTAAGAGGAAAACTCATAGCTCTAAGTGCTCTCTAGAGAGAGCATGCACTAACAGCTTGACAGCACACCTGAAAGCCCTAGAACAAAAGGAAGCAAATACACCCAAGAGGAGTAGACAGCAGGAAATAATCAAACTCAAGGCTGAAATCAACCAAATAGAAGCAAAATATCTATACAAAGAATCAACAAAAACAGGAGCTGGCTCTTTGAGAAAATCAACAAGATAGATAAACCCTTAGCCAGACTAACTAGAGGGCTCAGAGACAGTATCCAAATTGATAAAATCAGAAATGAAAAGGGAGACATAGCAATGAAATAATCTCAAAATGCCTATTCTGTTTGTTGAATAATTAACAGTTGAAAATATTAAAATCATGTTCTAGAAAAAAAAAAAAAAGCCAGAGGCTGGGAAGGGCTGATGCCCAGCAGTGTTTTCTGGACATGACAAAGGCTGGTGCATGGCGAACTCACTGAAGGGAAGCTGGTGGTAGATGGTTGCCTAGACACATGTGGAAATCTGGGCCTTTGCTTTTTAGCACAAGTCTGTCAGCAAATAAACATTATGACCATCAGGAGACACAGAATCATTTCTTCTCTCAAATGTGTGTAATCTTCAGAGGAGGCGTAACCGTTTCTTCTCATGTACGTGTATCTCTAAGTGCAATAATTTGCACAGGCTGGAATGAAAAGCAGTCTGTAGACTCACTACAGCAGGGCAGTATAGAAATGTTTGCTGGAGGGTCTGGAGAGATGGATCAGCACTTACCCACACGACAGCCCACAACTGTCTGTAACTCCAAGATCTGACACTCATATAGACATACATGCAAGCAAAACACCAATGCACATAAAATAAAGGTAAATAAATTTTTAAAAATTTAAAGTTTAAAAAAAAAAAGAATGGACCAGGCTTAAAAACAGTCTGCAACAAATATGAGCTGTATGTGGGAATAGCCGAGTGGTGGCCATGTCTGTACTTCCTCCCTAGCCAAGGCAGGAAGAAAGTCAGCGTGGAGAGTTTTGCTAGCAGCCTGATTGTTTCCCTTGTCAGCTTGTTTGGGCCTGGCTACTGGATAATTCTGAAGGAAAGACCCACTAGAGTCCCTTTTCCTGCAGTATTGTGGGAAAAGAGTGAGTATGGAAACTAAGTAGCAAGTTGCTGAGCTTCTTGTAACCACATGAGCTTAGTAACTGTGCTTTGCTTTTGTTTTGTGTTGAAG
Seq C2 exon
GGTAAGCGGGGGAACTTGCTGGAGCATGAGCGGGCAGCCCTGCAGGACCACATGCTTCTGGTTTTAGAGAAGAACTACCAACTAGAACAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026637-Traf5:NM_011633:7
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=0.029
Domain overlap (PFAM):
C1:
PF0314511=Sina=FE(10.3=100)
A:
NA
C2:
PF0314511=Sina=FE(14.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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: