MmuINT0166420 @ mm10
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28678952-28680205:+
Coord C1 exon
chr2:28678952-28679118
Coord A exon
chr2:28679119-28680022
Coord C2 exon
chr2:28680023-28680205
Length
904 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
AGTGTCTCTGCCTTTGCTAGAAA
3' ss Score
5.74
Exon sequences
Seq C1 exon
GCTCTCCTCCCTCAGATGAGCTCCGGACCCTCCGAGACCAGTTGCTTTTACTGCACAATCAGCTGCTGTACGAGCGCTTCAAGCGGCAGCAGCATGCACTCAGGAACAGAAGGCTCCTGCGCAAGGTGATCCGAGCAGCGGCTCTGGAGGAACACAATGCAGCAATG
Seq A exon
GTGAGCAGTCAGGGTGATCCATCCACGCACTGCTGTGTAGAGAGCAGCTGCCGAGTGGAGGTCCCAGCTCTGCCCTGAGTGGCCAAGGGCGGGCCACTTAGCCTGTGAGGAACAGATGTGCATGGCTAAATCTCATAACTTCTCCCACACTCTCAAGAACCACAAGAACAAGTGCCTTTGTGACTGCTTGGCATTGCGGAAGGAGTTTATTTTTCCTGCTGGTAAGCCATTTGTTTCATGGCACCGAACTGAAGGTGTTTGATGCCATGGATATAAAGCCAGCCAGACATGGACTTTAAGTGTCAGGTTTTACCTTAAGCCTTTGGGGTTTTTGTTGGGGGGTGGGTTGTTTGTTTGAGACAGGGTCTCTCCATATAGCTTGAACAGGAACTCACTATGTAGACCAGACTGGCCTCAAACTCACATAGACCCACCTACCTCTGCTTCTGCCTCCCAAGTGCTGGGATTTAAGGTGTGCACCACAGCAGGTGACTTGGGTTAAGCCTTCTGATGCCTCTTTACCTTTTCTGTAGATGATAAGTGATAGTGGCAGTCTGTGTTGTAGCCAGTGTGTTAACTCGTGCCAACAAGCATTTGTTCTGCCTGGCCCACAGAGTGCTCAGTCAGGGCCCAGCGCTTTAGAGGACTACCACACTGTGTATTCAAGGCCCTCCTCAGAAGGCAGCTAGGACTGTAGCAAGCATGAGAAGTTCCTTGAGGAAAGTTCTATGTGCTAATGTGCAGTTTGGAAAACTTTTGACAGTAGAGAGGCACCAGACCCATAAGTGTGTGATTAGAATTTCAGAGCAGTGTGTTGACTGTCAATGTTGGTAACGTGTTAACCTTGAGTGTCACTGCCCATGTTGGGTGACAGCTAAAATGATAGTGTCTCTGCCTTTGCTAG
Seq C2 exon
AAAGATCAGTTGAAGTTACAAGAGAAGGACATACAGATGTGGAAGGTGAGTCTGCAGAAAGAACAAGCCCGATACAGTCAGCTTCAGGAACAACGTGACACCATGGTGACCCAACTGCATAGCCAGATCAGACAGCTACAGCATGACCGAGAAGAATTCTACAACCAGAGTCAGGAGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812:ENSMUST00000113869:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.124
Domain overlap (PFAM):
C1:
PF043887=Hamartin=PD(5.3=67.9),PF149681=CCDC84=PU(7.0=25.0)
A:
NA
C2:
PF149681=CCDC84=FE(30.0=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:
CTCCTCCCTCAGATGAGCTCC
R:
TGTAACTCCTGACTCTGGTTGT
Band lengths:
346-1250
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