MmuINT0164541 @ mm9
Intron Retention
Gene
ENSMUSG00000026637 | Traf5
Description
TNF receptor-associated factor 5 [Source:MGI Symbol;Acc:MGI:107548]
Coordinates
chr1:193890775-193894516:-
Coord C1 exon
chr1:193894298-193894516
Coord A exon
chr1:193890833-193894297
Coord C2 exon
chr1:193890775-193890832
Length
3465 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTTTTTGGTTTCCTTTCTAGAGA
3' ss Score
10.26
Exon sequences
Seq C1 exon
AATGGCTCATTCGGAGGAGCAAGCGGCTGTCCCCTGCGCCTTCATCCGCCAGAACTCTGGCAACTCAATTTCCTTGGACTTTGAGCCCGACACCGAGTACCAGTTTGTGGAGCAGCTGGAAGAACGCTACAAATGTGCCTTCTGCCACTCCGTGCTTCACAACCCCCACCAGACCGGCTGCGGGCACCGCTTCTGCCAGCAGTGCATCCGGTCTCTGAG
Seq A exon
GTGAGTGGGCAGCGCCTGCAGCTCTGACTGACGCTGACCAGAACCAGATGGTGGTGTTCCTGGCTTCTGAGTCTGCTGTGGCCACAGGGCTATAATTGAGGTTTGGGGAATTGTGGTTTGGGGAACACTCTCCAAGACTCCTGGCTGAGAACTGAAGTGTAATCCTCTTTGCTTACTGCTCCTTTGTGGACATTCACCCTGCCTTGAAGTTCACACTCCAGTGGCCCTGCAGACACGGTCTGTCCCTATAGCTGTCTGCTGAAGAGGGCACACACAGCTCCTGGTGTCTGCCCTGATGATCACTCATTTGGGGTAGCAGTCCGTGATGTCTATAAGGGACTTCACTGCCATTGGGCTGTCTGCTGGGAGCCTGCCTTGCCAGGAATGGGTTGAGGTGGGATCAGAGCCAGAAGTCAGATGCAGGTCAAAAGATTGATCTCCTGCCTTTTAACTCTTTACTACTTTGTGCTAAAAACTTAACTCCTCATTACTTGTGCTTAAATAAACGTGAATATCTGGCGATTAACATATGCTGTTTAGCAGTGGGGAATTAAGTAAAAGATTATTGCTCCCTTCTCTGGCCAGGCAGATTAAATTTTTGTGAACCAGAGAGGAAGGAAAAGAAAGGAATTAAGATTCTTGCTGGGCAGTGGTGCACACGCCTTTAATCCCAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGACTGCACAGAGAAACCCAGTCTCAAAAAAACAAAACAAAACAAGAATTAAGATTCTTTGCATAGGCAAATATTCACAGACACATGTACAATCATATGCTCACACTCTGGAGCGGCCTGACTGTCTGTCTCAATACAAGTCCACAAGTATTCGTGCATGCTTACATACATGCACATATACCTACGTGTGTACATATAAACAGACATATACATTTGGATGGATGGATGGACGGACGGTTGGGGCAGAGTCCCCCAAACCACCACATCATCTTTATTGCTTTTCTGCAGCCTTTTTTATACCTTCTTAAACAAAAGTTCTTTAAAGAACTACTTCATAGATGAAATGTTACACAAAGTAGGCGTTACAGAAGGATGTTGATATCAAGTTCAAAGCAGTGTTTCATAATATATGCTCATTGTAAATCCAAAGCAACAGTTTCTTAATGGCCTTGCCTTACCATAGTGCACACCTGTGCCTTCATTCTTGGACCTGAATGCTTTTCCTCGAACACAAATTTGTCCCAAGCCTATTGCTCTTTTTAGTGTAACTATGGAAGTTCATTGCATTCCTTATTATGTAGCCTTTACTTACTGCTATGAGGAGGGGCACATCCTATTTTTGATTCTAACTTTATTATATCTTACTAGCAAAACAATTAAAGCCACCTCTTAAAACTTTCTTTCTAAGATTATTTGAATCAAATCAGAAATTCTATAAAATCATTAATTCATCTAAACAGCATTAACTCATGAAGGTTCATCTTTATGATGATCTGCAGGAAATCTGATCAATAGGGGTGGGCTAATGCCCAGGGATTACTATGTAAATTTATAATGACAGGAAAAGTGTATCAGCTATAAGAAACAATCCTGAGATGAAGTCTCTTCGGGGCCTTGCCCCTCAGAGCTCACCCACTGCAGACAATGCAGAAACAATGAGCCACTTCCAGGAAGATAACTTGCTAGCCTTAGCCTATCCTGGATGGCTCCTGGCAGCTGTCAACGCTGGAAAGCCTGCAATAACATAACGCCATGAAAATACTCAGGGCTAGAAAGGGTTCGTTGTTGGCTCACAGCTTTACAGTGCCGGTTTGTGATTGATAGGCTTTGGAAATATAACAAAGCAGGCACATCGTGGTGGGAGGACATGCTGGAGCCCAAACAGTCACCTGCATCATCCAGGGAGGAAAAAGGGGAGAGAACAGTGCATGGGGCCCCTTCTCCCCTTCAGAGACACACCATCATGAGCCCACTAGGCTCCACCCCTCCAGAGCCCCACCCCTCCAGGGCCCCACCTCTCCAGGGCTCCACCTCTCCAGGGCTCCACCCCTCCAGGACTCCACTGTGCCTTAGGTTCTCCGGGGAACAGAATCCATAGAATATACATTAAAAGGAGGGTTATTGGAATGGTTTTCACAATGTAGTCTGGGCAGTCCAACATGTGCCTGCATGTAAAATGGCTGTGAACCTGGCAGTTACTTAGTCCACCAGGCTGGATGCTGCAGCAGCTCCAGATAGGCTCAGAAGGACTGGCAGAGTCCTGGAGAGCCACTACTCTCCAATACACATTGGAAGGGCAGTGGCAGCAGCGATGGCTGCAGCAACAACGGAGTAGATGCACTAACAGTCAAAAGTGGCAGTAGACGAGTAGTGCTGCTTTTTCCTGGGACTCTTTATGTCTGGGTACAAAGATGCTGCTGTCTCTGAGGGAGGCACTCCCTTAGGGAATCCTTCCTGGCAAAAGCTCGCCCAGACACAGGTCTCTTGGTTGATTCCAGAGCTAATCAAGATTAACTTTGACACAAGCCTTCCCAGCAGCACCACCCTGGGGAATCACAGCTTTATTTAACTCATGGAGTAGGGGAGCCTCTTAACATCTAAACTGTAGCAATCTGGGTCATGCCACTTGTTCGAAACCAGGAGAGCCTGGAAGCAGGCTTTGGAAGCTTCTAGAGCTGAGCATGTCAGGCTGTAGAAGGGGCTTCAAGACAGGTCCTCACTCATTCCAGTGTGTCAGCACTGTGTGCTCACTTCTTTGCTCCAGTAAGCTCTAGGTTCTAAAGGTGAAGAACCCGGCCGTCACACTGTACTACAGCCTGCCTTTCCCTTAGATGGAGACCAGAGATGGAGCCATTGACAGTCTGGGGGACTTGTGTTTGATGGCATGCTGGTAGGTAGCTAGGCATTTTCCAGGAAGGTTGTAAGACTGTGAAGTTCCTGATACAAGTCTTAGTTAGGGTTTTATTGCTGTGAAGAGACACCAAGACCAAGGCAGCTCTTATAAAGGAAAACATTTCATTGGGGCTGGTTTACAAGTTCTAAGGTTTATTATCATCATGGCGGGAACATGGCAGCATCCAGGCAGACATGGTCCTAGAGGAGCTAAGAGATCTACATTTTAATTCGCAGGCAACAGAAGGAAAATGGTGCTACCCTGAGTGTAGCTTGAGCATAGAACCTCAAAGCCCCCCCCCCAACAGTGACTCACTTCCTCTAACAAGTCCACACCTCCTCCAGGGCCACACCTCCTAATAGCGCCACTCCCCATGGGTCAAGCATTCAAACACATGAGTCTATGGGGGCCATTCCTATTCAAACCACCACAGCTGCCTTCTGGGTAGAGTACACAGCTTGTGCCAACACAGAGTGGCTGAGTGCTCTTGGAAAGACTGTTGAGGTTAAACACTTAATTAACTTCAGCCCTCTTTTTTGGTTTCCTTTCTAG
Seq C2 exon
AGAATTGAACTCGGTGCCGATCTGCCCGGTAGACAAGGAGGTCATCAAGCCTCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026637-Traf5:NM_011633:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PU(71.8=38.4)
A:
NA
C2:
PF0009720=zf-C3HC4=PD(25.6=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: