MmuINT0166399 @ mm10
Intron Retention
Gene
ENSMUSG00000039826 | Trub2
Description
TruB pseudouridine (psi) synthase family member 2 [Source:MGI Symbol;Acc:MGI:2442186]
Coordinates
chr2:29776110-29778868:-
Coord C1 exon
chr2:29778732-29778868
Coord A exon
chr2:29777957-29778731
Coord C2 exon
chr2:29776110-29777956
Length
775 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TGTGTGTCTGTGACCCACAGAGG
3' ss Score
8.23
Exon sequences
Seq C1 exon
GTACTCCAACCTGGACCTGAAATCCCAGGAGGCCTATGAGATGGCTGTGCAAGGTGTGATCAGGCCCATGAACAAGTCCCCCATGCTCATCTCTGGCATCCGCTGCCTGCACTTTGCACCTCCCGAGTTTCTTTTGG
Seq A exon
GTAAGTCACCCAGGAAGCTGGAGTGATGTGATGGAGTCATGTGCGGCATGCCCAGCCCCGAGTGGCTTCTTTCCACCAGGAGTAGCACAAAGGCTCTGCTCTGTCTCCTGTCTATTCCCAAAGCATGTGAAACCAGCCCTTAAGAAACAGAGGCTGGGGGCCAGGCGGTGGTGTAGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGAAGGCAGATTTCCCAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGGCAGGGATGCACAGAGAAACCCTGTCTTGAAAAACCAAAAAAAAGAAAGAAAAGAAAAAAAGGAAAAAAAGAAACAGAGGCTGGGTCTCTGGCAGCTCAGTTCCTTAGCAGTTCCACCTTGTTCTAGGCCCCTCAGGCATGACTGTCACTTCCTGAGTCTCACCCAGCTCTGCCCCAGCCTCTTCCCTGTTTCCGTGGGTTCTTCCCTGGGCTCTGACCAAAGACCCTGGTGGAGAGCCCCACATGACAGTGCTGTCTCTGACCTCAGTCCTGCTGCTGAGTAGACCAAGTGTGTGAGTGATGCTGCCAGAAGCCCAGCCTTTTTACAGCTCAAGCGGGGGGTCCAGAGCTGGGGTCTGCCCCCGCAGGTGCAGGAGGCCTGCAGTCAGCACCACTGCCGTGCTCTCAGCCCTACAGCAAAGCTCAAAGGCATCTCATGAAGGGACATGAGTCCACGTCAGCTTGGTCCCTGCAGCTGTTCCTGACGGTCACGTCTGTGTGTCTGTGACCCACAG
Seq C2 exon
AGGTGCAGTGTATGCACGAGACGCAGCAGCAGCTGAGGAAGCTGGTGCATGAAATCGGCCTGGAGCTGAAGACCAGCGCTGTCTGCACGCAAGTGCGGCGGACTCGGGATGGCTTCTTCGGCCTGGATGATGCCCTCCTGAGAACCCAGTGGGACCTACACAACATCCAGGATGCTATCCAGGCGGCAGCTCCCCGGGTGGCAGCGGAACTGCAAAAGAACTTGAGCCTAAAGCTGGGCCACCATCAGCTCCCCAGCACTGGGCAACCTTGGGGTCTCAAGGACCCAAGCTCCACTTTGGAGTTGGAAAGCTGTTCAGGGCAGTAAAGGGCCAGGTAGCAACCAGATGGAGAGCAAACAGGCTCTTCACAGGTCAGAACTGGTCACTCCGCAGGAGTAATGAGATCAGGGGCCCCTGAGCCATTATCCTTGAGACACAGACTAACTGCAGAGGCAAGCAGGTGTGGCCATGGGGGCCTATCGTCCCAGCTAATTGGGAGGCCCAGGTTAGAATCTTAACAGTTCAAGGCCAGCCTAGGGTTTCTTAGTAAAACCTTGACTCAGAGTCAGGCATGATGTCTCAGGCCTGTAATCTTAGCCCTCCAGAGGTAGAAAGGAAAATCGTGAGTTCAAGGCCAGCCTGGGCTACTTGCAGTGTTCAGCTTTTCAACTGATGGGAAATGCCGCTGCCTCAGCACTCCTTGGCCGTGAGCGATGATCTTTTCACAGAGGGAAAGTCTTTTTTGCTGTTTCAAGGTGTCTCACAGCTGAGATCTCAGTACTACTCAGCTGAGCCAGGAGGATGGCTCTGAGTTTAAGGCCAGTCTGAACAAGTCTCCTGGAGTACTTTGTGGTATGTGTCAGTATTTAATCCTGCCAGTCAATCCTGCAAACCTGTAATTAGCACCTGGGTGGTGGAGACTGGAAGATCTGGAGTTCAAGGTCATCTTTGGCTACATAAGTTCCAGGCTACATGAAACGTTATCTCTAAGACAATATAAAAAGCCCAGAATTATTTTTTAAAAGGTTTTCTTTCTTATGCATGTGAGTATTTACATGCATGTATGTCCACACCTGGTGCATCATGGAGGCTAGGAAAGGATGTAAGAGCCCTGTGGCTGGGCTTAAAGGCAGTTGTGAGCCACCAAGAAGATGCTGACAATGGACCACTAGTCCTCTGGAAGACAGCTTAACCACTGGTCCATTTCTTCAGAATTTAATTTAATTGCCTGCCCTGTGATACAATGCTGTAACTATCCCGTGCCCCGGCTGTAAACACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTAAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACGAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTTACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTTACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTTACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTTACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTAACAGGCTGATGATTGTTGGTGTCTGCAGTGTGAACACTAACAGGACAGCAAGGGATGGTGTTCACTCAGTGGTGCCGGTGGAAGGCGTGGTGCAGAGAAGACATCGGGTTTATAAAATACAGTGGTTTTCCTCTTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039826:ENSMUST00000048044:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.101
Domain overlap (PFAM):
C1:
PF0150913=TruB_N=FE(30.7=100)
A:
NA
C2:
PF0150913=TruB_N=PD(6.0=8.3)
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:
CACTTTGCACCTCCCGAGTTT
R:
CTGCCCTGAACAGCTTTCCAA
Band lengths:
351-1126
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