MmuINT0166422 @ mm10
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28681191-28682034:+
Coord C1 exon
chr2:28681191-28681301
Coord A exon
chr2:28681302-28681911
Coord C2 exon
chr2:28681912-28682034
Length
610 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTCTCACTTCCATCTGGCAGCTC
3' ss Score
7.01
Exon sequences
Seq C1 exon
ACAAAGCTGGAGGACTGCAGAAACATGATTGCGGAGCTTCGGGTGGAGCTGAAGAAGGCTAACAACAAGGTGTGCCACACTGAGCTGCTGCTCAGCCAGGTCTCTCAGAAG
Seq A exon
GTAAGATTAGACCCTCACCTGCTGACTCTTGCATCAGGCAGACAGGTATATTACTTGTATGTCTGTATTGGTGATCCAGCAGTGAGCGATTCTACCCAAAAACATTTGGCGACATCTGGAGACGTTGGTTCGAGTGGGAAGGACCCATGGGTATTGACCTCCAAGTGCAGTACACCCTCCAATGCAGACGGTCCTCACAACAAAAGTACCCGACGAGCTGAGGCCAGGCACATCCCATGGAACTCTTTTCAATGCCTTGTTTTTGAAGTCTGTTAAGGCTTTTGAACTGTGGCTTTCCATAGGTATTCAGTGAGATCTGTGTCATGTATTCAGAAAGAGGTTACTGGGGTACACTGGGGCTTTACAGAGCTGCCTCTGCTCCAGTGTTCTTGGGCCAGCTGTATTGAAGTGCATTCGTGTTGCTTCTGTGCAGAGAACAACCTCAGTGTGTTTCTGCTGCCCTTGGGCACCTTCTTCTCCATTATCCATGGACTCAGTGGGAATGGTTTATTCTGCTCTGCCTTGTACTGTGCTCCCCAGTAGTTACTGTTGCTGTCTGTTGCCTAGTTTTGCCATGCTGAACTTGCACTTTCTCACTTCCATCTGGCAG
Seq C2 exon
CTCTCCAACAGTGAGTCAGTGCAGCAGCAGATGGAGTTCTTGAATAGGCAGCTCCTGGTGCTCGGGGAGGTCAATGAGCTGTACCTGGAGCAGCTGCAGAGCAAGCATCCTGACACCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812:ENSMUST00000113869:19
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=0.146
Domain overlap (PFAM):
C1:
PF149681=CCDC84=FE(18.0=100)
A:
NA
C2:
PF149681=CCDC84=FE(20.0=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:
ACAAAGCTGGAGGACTGCA
R:
TTGGTGGTGTCAGGATGCTTG
Band lengths:
233-843
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