MmuINT0153212 @ mm10
Intron Retention
Gene
ENSMUSG00000031024 | St5
Description
suppression of tumorigenicity 5 [Source:MGI Symbol;Acc:MGI:108517]
Coordinates
chr7:109539662-109540436:-
Coord C1 exon
chr7:109540392-109540436
Coord A exon
chr7:109539847-109540391
Coord C2 exon
chr7:109539662-109539846
Length
545 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
AATGTGAGACCCGCCCCCAGCCC
3' ss Score
1.28
Exon sequences
Seq C1 exon
ATGAGAACAGTGAAAGCGAGAGTGACTCTGATGACAGGTTCAAAG
Seq A exon
GTAAGGTGACATTCCTCCCCATCCCCAGGGAATCAGCTTGCTCTTCCACATGCATGGGCCCAGGGTCCCAGAATGGCCCTGGGGTGTGGGGAAATGTCAACAGGAACGCCAGCTAGCAGACCACCAGAGCAGGAGGCTATTGAGAAATTCCTTCTTTGAGCTCAGCCCTTCAATGTTGAGTCCAAAAATTGGTTTCCCTGTGCCAACTTTAAAGCTGTTAACTGTCCATCCTTCCTGAGCCATTGCTCCTGGACACTGGCTACTAGATGTGCTTTATAAATATTGTAAATCTGGAGGCCCAGTGGTGGGTACAGATTATAATCAACTCTTTTGGCTGCAAGAATTGTGCCATAAACTGAGAAAATTGTCCTCTGGCTCCCTTAAGGCCACCTGTGTCTCCTGTGTCTAGAGAGGAGACTGAAAAGTCAGGTAAGACTTATGTACATAGACGTTATGCAGAGATGGAGCTGAGTCAGGTGATGGGGCCGATGGGAGGTCTTTGAGTGGCCAGTCTGGTTGTCTCCTAATGTGAGACCCGCCCCCAG
Seq C2 exon
CCCACACCCAGCGCTTGGTCCACATCCAGTCGATGCTGAAGCGAGCGCCCAGCTATCGGACGCTGGAGCTGGAGCTGCTCGAGTGGCAGGAGCGGGAGCTTTTTGAGTACTTTGTGGTTGTGTCCCTCAAGAAGAAGCCATCTCGGAACACCTACCTCCCTGAAGTCTCCTATCAGTTTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031024:ENSMUST00000077909:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=NA C2=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0345613=uDENN=PU(12.9=14.5)
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:
ATGAGAACAGTGAAAGCGAGAGT
R:
CTTGGGAAACTGATAGGAGACTTCA
Band lengths:
230-775
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