MmuINT0153199 @ mm10
Intron Retention
Gene
ENSMUSG00000031024 | St5
Description
suppression of tumorigenicity 5 [Source:MGI Symbol;Acc:MGI:108517]
Coordinates
chr7:109534634-109535371:-
Coord C1 exon
chr7:109535294-109535371
Coord A exon
chr7:109534775-109535293
Coord C2 exon
chr7:109534634-109534774
Length
519 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GCTGCTGGTGGTGGGCACAGGTC
3' ss Score
3.01
Exon sequences
Seq C1 exon
CCAAGTGGGAAAGGGCCTCGGTTGCCAGAGGTGTACTGTGTCATCAGCCGCCTAGGCTGCTTCGGTTTGTTTTCCAAG
Seq A exon
GTAAGATGCTGACTTTCTCCCCATCCCCGTGACAGCTCTCATAGGAGTCTGCAGATAGCCTAGATAAGAAAAATGCCTATGTGAGAGAAAGGGCGTACAGAGCAAGTACAGGTGGGCTCTCAGAATCCTGTGTTCCCAAGCCTGGCTTACTACCTAGCTGCCTGGCATTTCCCCAACTCCTGGGTTGATGCTGACTGCTCTGTGGTAGCCCAGCCTGGTCCATGGACAGAGCAGGAGTCCTTTGAGAAGCCAGGAGTGCTCAGGAAGCTGTTTCATGGTGCTATTTCTTTTGCCCTGATGTTTCCTTCTTGGGGACTAAAGCAGGCCACCAAGGGAACTGAATGGTCATTGAGGGCCAAGAGAAACAGGAAGGGTACAAGATCCTGGCAGGACAGCTTTTGTGTCTCCAGGCTTCTGGTCCAGCTTGGTCAGAGACCAGGTTGCCCTCTTCTCTGTCAGAGAGGTGGAGAAGGCAGCTCCCGACACTCTTTCTCTTTGGGCTGCTGGTGGTGGGCACAG
Seq C2 exon
GTCCTAGATGAGGTGGAGCGCCGGCGTGGGATCTCAGCTGCACTGGTCTACCCCTTCATGAGAAGTCTCATGGAATCGCCCTTTCCAGCCCCAGGGAAAACCATCAAAGTGAAGACATTTCTTCCCGGCGCTGGCAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031024:ENSMUST00000077909:12
Average complexity
IR
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:
PF0214116=DENN=PU(10.3=73.1)
A:
NA
C2:
PF0214116=DENN=FE(24.9=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:
CAAGTGGGAAAGGGCCTCG
R:
CAGCGCCGGGAAGAAATGTC
Band lengths:
210-729
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