MmuINT0166413 @ mm10
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28671766-28672504:+
Coord C1 exon
chr2:28671766-28671881
Coord A exon
chr2:28671882-28672392
Coord C2 exon
chr2:28672393-28672504
Length
511 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGG
5' ss Score
5.98
3' ss Seq
ACATTCTGATTTGATTGTAGGCT
3' ss Score
6.9
Exon sequences
Seq C1 exon
GGGGTTCTACTTCCACCCCTTCCTCCAGCTCTCGGCTGATGTTGTTCAGTCCACCTGGGCAGCTACCTCAGAGTTTGAGTTCCCCATCAACACGGCTGTTACCTGAGCCGCTGCAA
Seq A exon
GTACGGTGCCACTCAGCATGCCTTCACCTCCTCTACCTTCCGGTGAAGTTGGGCTATTGGTCAAGATTTAGTATGTAATGGGGAAATTGCACACACAGTGTAAGTTTCAGGAGGACCCTTTAAGGACCCTTGACATGATCAGACAAAGCCACTGTTGCCACGTGGCACCTTGGAGCCCAGACACCTGAAATGCAACTTGTCTCGCGGTAAAGATTTCATAACATACTACTTGTAGTTGAAAATGCTGTGTCTAGCTGGGTGGTGGTAGCGCACACCTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAAAATGAGTTCTAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAAAACCAAAAAAAAAAAAAAAAAAGAAAAGAAAAGAAAAGGAAAGAAAATGCTGTGTCTAAGCTGAGCATTGACGGAAACCTCGTGCAGGATTCACTGCACCTTGTGATGCTGACATTCTGATTTGATTGTAG
Seq C2 exon
GCTAGTCTCTGGAGCCCATCTGCGGTCTGTGGTATGACCACTCCTCCTACGTCTCCTGGAAATGTCCCAGCTGATTTGTCACATCCGTATAGTAAAGCCTTTGGTACCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812:ENSMUST00000113869:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.933 A=NA C2=0.892
Domain overlap (PFAM):
C1:
PF043887=Hamartin=PD(12.4=66.2)
A:
NA
C2:
PF043887=Hamartin=FE(5.2=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACTTCCACCCCTTCCTCCA
R:
CAGTGGTACCAAAGGCTTTACT
Band lengths:
222-733
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