MmuINT0166425 @ mm10
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28685723-28686146:+
Coord C1 exon
chr2:28685723-28685910
Coord A exon
chr2:28685911-28685984
Coord C2 exon
chr2:28685985-28686146
Length
74 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACT
5' ss Score
5.88
3' ss Seq
TGAACCATGCTGTCTTTCAGTGG
3' ss Score
6.68
Exon sequences
Seq C1 exon
GAAGTAGAAATGATGAAAACTGCATATCGGAAAGAGCTAGAGAAAAACAGAAGCCACCTTCTCCAGCAGAACCAAAGGTTGGACGCCTCACAGAGGCGAGTTTTGGAACTGGAGTCTCTTCTGGCCAAGAAAGACCACCTTCTCCTAGAACAGAAGAAATATCTTGAGGATGTCAAGAGCCAGGCGAG
Seq A exon
GTGACTCACTGGAAAGGTGTGGGTGTTGGTGTGGGTGTGGCCCCTCCCGTATTCTGAACCATGCTGTCTTTCAG
Seq C2 exon
TGGACAGCTGCTGGCTGCAGAGAGCAGGTATGAGGCTCAGAGAAAGATCACCCGGGTGTTGGAACTGGAGATCCTAGACTTGTATGGCAGGTTGGAAAAAGATGGCCGCCTACGGAAACTAGAAGAGGACAGAGCAGAGGCAGCAGAGGCAGCAGAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812:ENSMUST00000113869:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.349 A=NA C2=0.236
Domain overlap (PFAM):
C1:
PF149681=CCDC84=PD(12.5=44.6)
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:
TCTGGCCAAGAAAGACCACCT
R:
GTAGGCGGCCATCTTTTTCCA
Band lengths:
182-256
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