MmuINT0166421 @ mm10
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28680023-28681301:+
Coord C1 exon
chr2:28680023-28680205
Coord A exon
chr2:28680206-28681190
Coord C2 exon
chr2:28681191-28681301
Length
985 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TGGTCAACTGTCTTTGGTAGACA
3' ss Score
3.87
Exon sequences
Seq C1 exon
AAAGATCAGTTGAAGTTACAAGAGAAGGACATACAGATGTGGAAGGTGAGTCTGCAGAAAGAACAAGCCCGATACAGTCAGCTTCAGGAACAACGTGACACCATGGTGACCCAACTGCATAGCCAGATCAGACAGCTACAGCATGACCGAGAAGAATTCTACAACCAGAGTCAGGAGTTACAG
Seq A exon
GTACCAGGCGGGTAACAGAAGGCATGGTGTCAGCTGTGTCCTCACACCTCACTCAGCTTGCCTGAGATGAACACTATGCTCTGAAGTGACAAGTGTATTGTGTATGGAATGGATCCGAGGACAGAAGTCCCTAGCTTTCTCCATTCAGTGTTTCCCTAGTGTTCCCAACACCCTGAAGCCAAAAGAAACAACTAAGTCAGCAGTTCTCAACATGTGGGTCACGACCGTAGGAGAAGCACATATTTCTTATGGTCTTAGGAACTGACATAAACCACTCAGTAGCAAAATTACACTTGTGAAATAACAAAATAAATTTATATCTGGGTTCCTAGGACCATAGGAGATAGGTCAGGACCCACACATTGGGAGCTGCTGCTCTAAGGGATCTGAATGCTCTGTGGGGTTGATTCCTCTTGGCATAGTGGCTCAGAAACAGCACGCCTACATTTAAAATATTTTAGACTTCACTTTTAAATAGCCATGATTGCTAAGTCAAGTGACTCTGTTGTCATCACACAGTGCTTTGGCTTTGGGATCAGTAGACAGTGACACTTCATTTCCTCCTCCTCTCTGTTTTCTCATACTGCTTTTTTAGCACATAAATATTAAAAGCCCAGTGTTGCCGGGATGTGGCATTATCCTCACACTCGTAGGATAATTAATCTCTACCAATTAATCGGTAGTTCCCATGATGTCCCACAGATGTCGCTGTAGTACCCTCAAAAGAGTGAAAGGTCTGGGCCAGTTTCTGTGTAGTTGCATGGTCTGGACATGCAATTTTGGACTTGTAGGGATCAGGTCTTTGGGAAGGCCCCCCTCCCTTATTTTAAGTAGGAAGAGACTCAGAATCTCTCCCTTTAAACTGTAAAGTCTGATACTGATAGACAAGAGAGCAGTTGAGGAGCAGCGCATCCCCAGCTCTGCCTCTGTCCGTGGCTGTGCCGGTCTGTGCTCTTGTAACCTCATGGTCAACTGTCTTTGGTAG
Seq C2 exon
ACAAAGCTGGAGGACTGCAGAAACATGATTGCGGAGCTTCGGGTGGAGCTGAAGAAGGCTAACAACAAGGTGTGCCACACTGAGCTGCTGCTCAGCCAGGTCTCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812:ENSMUST00000113869:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.124 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF149681=CCDC84=FE(30.0=100)
A:
NA
C2:
PF149681=CCDC84=FE(18.0=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:
AAAGATCAGTTGAAGTTACAAGAGAA
R:
CTTCTGAGAGACCTGGCTGAG
Band lengths:
294-1279
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