MmuINT0153205 @ mm9
Intron Retention
Gene
ENSMUSG00000031024 | St5
Description
suppression of tumorigenicity 5 [Source:MGI Symbol;Acc:MGI:108517]
Coordinates
chr7:116668777-116669292:-
Coord C1 exon
chr7:116669053-116669292
Coord A exon
chr7:116668864-116669052
Coord C2 exon
chr7:116668777-116668863
Length
189 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CTGCTGTTCATCTTTCTCAGGCC
3' ss Score
9.33
Exon sequences
Seq C1 exon
AATGTAATACCCTCAATGGACTTGTGTCAGAGGTGTTTATCCGGTTCTTTGTGGAGACTGTGGGTCACTACTCCCTCTTCCTGACACACAGTGAGAAGGGGGAAAGGGCTTTTCAGCGAGAGGCCTTCCGCAAGTCTGTGGCCTCCAAAAGTATCCGCCGTTTTCTTGAAGTTTTTATGGAATCTCAGATGTTTGCTGGCTTCATCCAAGACAGGGAGCTAAGGAAGTGTCGAGCCAAGG
Seq A exon
GTAAGGTCCCAGGCACTGGGATGGGAGCTGGGGGCTTCTCTAGACTCAGTATAACTAGGTCATTGTAATGAACTGCCAACTAGTAGACTAGATGTCTGCCTTGTCCCTTTTGTATCTGCACTGTGTGGTCCATCAAACACTCATGTCACCATTTTTCTCTCCCTCGTACCTGCTGTTCATCTTTCTCAG
Seq C2 exon
GCCTCTTTGAGCAGAGAGTGGAACAGTATCTAGAAGAGCTCCCTGACACTGAGCAGAGCGGGATGAACAAGTTTCTCCGGGGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031024-St5:NM_029811:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF0345514=dDENN=WD(100=84.0)
A:
NA
C2:
NO
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:
ACTGTGGGTCACTACTCCCTC
R:
AACTTGTTCATCCCGCTCTGC
Band lengths:
257-446
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: