MmuINT0166428 @ mm9
Intron Retention
Gene
ENSMUSG00000026812 | Tsc1
Description
tuberous sclerosis 1 [Source:MGI Symbol;Acc:MGI:1929183]
Coordinates
chr2:28517102-28518133:+
Coord C1 exon
chr2:28517102-28517205
Coord A exon
chr2:28517206-28517980
Coord C2 exon
chr2:28517981-28518133
Length
775 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTGATGTTTTACATTTTCAGCAC
3' ss Score
8.39
Exon sequences
Seq C1 exon
AACGTGGGCCTATGCTTGTCAACACGTTGGTTGATTATTACCTGGAAACCAATTCTCAGCCGGTATTGCACATCCTGACCACCTTGCAGGAGCCACACGATAAG
Seq A exon
GTGAGTACTGGTGGGCTATCGTGGCCGTCTGTATATTCTCAGTCACTGGAGGGTGGCCCTGAGCCACAGCAGCTCATCCATAGTTAACCCACAGATGAGGAAAATCTGAAAATTTACAAAATAGCATCGATTTCAGAGGCTTTTTTACAGATCTTGCTCTTTAAAGAAATCTTATAATTCTAGCACTATAGTAGATTAATGACATTTGAAATAAAGATTTTAAACCTGTGCTTTGAGTAGGGGTTTTGAACGTACCAATAAAGAAAAAGCCCTGAGTGCAGCCAGCCAAGTCTTGCATTTGCAAATGAAGTTGCTTACTCTAGGATTGCATGCTTTTTACATCACCTGCAGTGGCCTTCTTTACTCTGGGCCAGATTGCAACACCACAATGGCTCGTTTTATATTTAAGGCTAGAGCATATATGCTAGGGTGTTACAGTAGTAAGGCCTTCCACAGCCTGCCCTGGGCTTATAACCTTGGGTTGTGTGTGTGCAAGGGTGGCGAGAGAAGCTGTAATCCCTCCTCTTACGGGATCCTTTTTCATAAATTGCAGCTGTTCTCTCAAGCCAAGTGAAGAAAGCTTTGTTCACTAATGTAGTTTTGAAATGTCGGATTGGGCCTATTGAGCCCTAGCCTTCATGGGGTGAGCATATCTCCAGCCCATCTTTTGGTGCTTGTGTTAAAAATAAAGGAAGACTTGAGGCCTTGGAGTTTAGTTGATTGGTTAACTTCAGACACTTCCAGGAAAATTTCTCTTGATGTTTTACATTTTCAG
Seq C2 exon
CACCTCTTGGACAAAATTAATGAGTATGTAGGCAAAGCTGCTACCCGTTTATCCATCCTCTCGCTGCTGGGGCATGTTGTGAGACTGCAGCCATCTTGGAAGCATAAGCTCTCTCAAGCACCTCTTCTGCCTTCTTTATTGAAATGTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026812-Tsc1:NM_022887:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(4.8=100)
A:
NA
C2:
PF043887=Hamartin=FE(11.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGGCCTATGCTTGTCAACA
R:
CTTGAGACATTTCAATAAAGAAGGCA
Band lengths:
254-1029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: