MmuINT0166398 @ mm9
Intron Retention
Gene
ENSMUSG00000039826 | Trub2
Description
TruB pseudouridine (psi) synthase homolog 2 (E. coli) [Source:MGI Symbol;Acc:MGI:2442186]
Coordinates
chr2:29634252-29635415:-
Coord C1 exon
chr2:29635343-29635415
Coord A exon
chr2:29634389-29635342
Coord C2 exon
chr2:29634252-29634388
Length
954 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CTGGCCCTCCCAAATCCCAGGTA
3' ss Score
6.48
Exon sequences
Seq C1 exon
ACCACGTGACCAGAGAGCGGCTGGACCGGATCCTGGCTGTGATCCAAGGCTCCCACCAAAAAGCTCTGGTGAT
Seq A exon
GTAAGTAGATCCAAGGGCTCCTCTGCCCTGCTGGGGCTTTAGAGGGGAGGTCCATACCCCCAAGGTATAGGATTAGGGGTGGGTGTGGGTGATGGAATCCCCTAGGATCTGAGAGCTTGCCTGAGAGGCCTCTACCAGGATGCTCAGGACTCCTGACTCCCAGGCATCAGCTCTGTGGCTCCCAGAAAACTACCTAGCCATCTGTAAATGGGACAGACTTACAGATGTAACTACCTGAGCACAGTGTTCTAGGCAGAGACAGGGACAGAGCAGGGGCTGAGCAGCTGGGATTGTAGGAAGTGGCTCAGTTGACAGAGCTCAAAGGATTAGCAGGAGACAGGCCCTGTGCCGTGCACCCACAGTGGGCGTGCCAGGACTGAAATGGCCAGTTGTGCTTAGAAGCCAAGGATCAGGGCTGAGGTAGGAAGGGCGGGGCAGGAGCAAAGGGAAGCAGGTAAGGCTGGCCAGGGCAGTGGGCACTGAGGATAGCTCTGAAGCAGCACTGTGGTCTCACTGGGGACCCTGTGAGGAAAGCCAGGCAGGGAAGGAGACCAGCTGTGAGGACAGTGCCTGGTGTTCCAAGCCTGCAGACAGCGGGAAAGCAACGGACCGTTGGGGGGGGGGGGGGAGCAGCAGCAGAGTAGAGGAAGACCCTAGAGGAGGGAGGGAGCACAGGAAAGAAGGGAGCTGGGGCATCTGTGTGGGTGGCCCTGGAATCAGTTGCATCTCTTAGGTTAGGTGTCTGAGGGTGCAGCACAGTGCACAGGGCGTGGTCAGGATTGCTCAGCCTGTGACAGATGGAGCCAGGGATTGATCTAGGATGCCTTTGGTGGCTGAGAGGGAGGCTGCTCTGAAGGGGTGGGGGCCAGGAATGGAGAACAATTAAGATACCCCCTTTTATGGTGGAGCAGGTGCCCCACACCAGCCTCCCATTCTGGCCCTCCCAAATCCCAG
Seq C2 exon
GTACTCCAACCTGGACCTGAAATCCCAGGAGGCCTATGAGATGGCTGTGCAAGGTGTGATCAGGCCCATGAACAAGTCCCCCATGCTCATCTCTGGCATCCGCTGCCTGCACTTTGCACCTCCCGAGTTTCTTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039826-Trub2:NM_145520:6
Average complexity
IR-S
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:
PF0084917=PseudoU_synth_2=PD(5.3=32.0),PF0150913=TruB_N=FE(16.0=100)
A:
NA
C2:
PF0150913=TruB_N=FE(30.7=100)
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:
ACCACGTGACCAGAGAGCG
R:
AAGAAACTCGGGAGGTGCAAA
Band lengths:
206-1160
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: