MmuINT0166416 @ mm10
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28675188-28675767:+
Coord C1 exon
chr2:28675188-28675248
Coord A exon
chr2:28675249-28675662
Coord C2 exon
chr2:28675663-28675767
Length
414 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAC
5' ss Score
5.88
3' ss Seq
TTGTCTCTCTCTCTCTGCAGAGG
3' ss Score
13.28
Exon sequences
Seq C1 exon
GAAGAAAGAGCAGATTCCTCAAGGCCTTACCTTCACAGACAGTCAAACGACCGAGGATTAG
Seq A exon
GTAAACTCCCTGGGTAATGATGGGCCTTGCTTGCCTCTTGGCATTGAACTCTGTAGCTTAAAAGCTAAGCTGGGTGGAAGAAGGATTTTCTGGGATAGCACCTATGCTGACTCCCAGGGGTATGAAACACCAGTATTAGAAGGTTGTCAAGCTACTGTCTAAAGTGCATCTTCTCTGAGCAGGTCAAACTAGGTAGTTTTATCTGTTATCAGAGACATTTCGGCCTGAGAACCATGCTTCTTATGGGGTTGGGTTTGGAACCTTTGCAAATGATGTGTAAGTTCTCCATCTTTTGTAGTGGTCCCAACTTTCTCTGCTCATCTGGAAGAACTGTTGCCGATGTGTATGTAGTGTCATGCCTTTGTGCTTCCAGGGTTAACCGTTTTGACATGAGTTGTCTCTCTCTCTCTGCAG
Seq C2 exon
AGGATCCACCTGGAAGCAAAGGTTCCGTTACTCTGAGGAATCTACCTGATTTCCTAGGTGATCTGGCTTCTGAGGAAGACAGTATCGAGAAAGATAAGGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812:ENSMUST00000113869:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.988
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(2.8=100)
A:
NA
C2:
PF043887=Hamartin=FE(4.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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