MmuINT0137260 @ mm10
Intron Retention
Gene
ENSMUSG00000041199 | Rpusd1
Description
RNA pseudouridylate synthase domain containing 1 [Source:MGI Symbol;Acc:MGI:1919186]
Coordinates
chr17:25728826-25729169:+
Coord C1 exon
chr17:25728826-25728928
Coord A exon
chr17:25728929-25729067
Coord C2 exon
chr17:25729068-25729169
Length
139 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATA
5' ss Score
5.05
3' ss Seq
ACACTTTAGTTTTCATCTAGGTT
3' ss Score
4.79
Exon sequences
Seq C1 exon
GTCCGAGGCCATGTCCAGGAAAGCCAAGTGACGATCAACTATGCCATTGGCAGGAATAGCACGGAGGGGCGGACGCATACCATGTGCATCGAGGGCACTCATG
Seq A exon
GTAATAGTGGTTTGTTGTGGGGGCCATGGGCATGTCTCCAAAGCCTGCGTGAATGGGAACGGCCAGACAGGTGGAAATTGGAGTTGGCTCAGGCTCTAGGGCTGGCCCAGTGGGCCCTTACACTTTAGTTTTCATCTAG
Seq C2 exon
GTTGTGAGAACCCAAAGCCAAGCCTCACAGAGCTGCTGGTCCTGGAACACGGCCTATATGCTGGTGACCCTGTGTCCAAAGTGCTGCTAAAGCCACTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041199:ENSMUST00000047273:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=FE(20.5=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=FE(20.5=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:
TCCGAGGCCATGTCCAGG
R:
CTTTAGCAGCACTTTGGACACA
Band lengths:
194-333
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