MmuINT0164012 @ mm10
Intron Retention
Gene
ENSMUSG00000026848 | Tor1b
Description
torsin family 1, member B [Source:MGI Symbol;Acc:MGI:1353605]
Coordinates
chr2:30952959-30954017:+
Coord C1 exon
chr2:30952959-30953223
Coord A exon
chr2:30953224-30953751
Coord C2 exon
chr2:30953752-30954017
Length
528 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGT
5' ss Score
8.79
3' ss Seq
TCCGGTGCGGGCCTCCGCAGCCC
3' ss Score
5.45
Exon sequences
Seq C1 exon
GAAGTTCAGTCCCTGGGACTGAATCCTGCGCTCGGAGCGCAGCCGCACGGTGCTTCCCTGCGTGCGATGAGACGAATCGGAGCGTTTGGGGGCTCCACGGCCCTGTGGGCGCTGCTGGCCGCCCACGTGGCGGGGGCGTTCGAGCCCGTAAGCGTGGGCATCGCCATCGGGGCCGTGTCGGCGCTCACCGGCTACCTGTCCTATACCGATTTCTACTGCCGCTTCACCGAGTGCTGCCATGAGGAACGGCCCCTCAACACGTCGG
Seq A exon
GTATGTGCCCGCGGGCCGGTCGGGGCGGGCGGGAGGGCACTGGGAGCTTGGCTCCCGCTCCTGCTGGATGCGGCGCCGCGGGAGACACACACGGCCGGGACCTCGCCACACCTTTGCAGGCCTTGCAATGACCACCTGGAGAACTGAACGCAACGGGGCCAGCTGGTGCGCCCCGCCAGGGGGTGCCAGGCGTGGAGCTCCATCCAGAAAGCCCGCCTGTTGCTCTTGCTGTTTGTTTGTTTTTTTTTCGAGCCATCAGGGGTGGCGGGAAAGCTAGCCCGGAGCACAGCCGCCAAATGGTTCTTCCCTGGATGAAAGAATCTGTGTAGCTTGTTTGACATTTAGATGTTAAGGAGAACTGGCACTTAAGGATCTGACTGTAGGTCCTTATGATTCTGGCTCTGATCTGTGAGATCTCTGCATTTTTCATCCCTTCTGGCCCTGCTGGATCAGTCGCTAACTGTGCCTCTGACTCAGGTACTTTTTTAACCTGTGTTTTTCTCTTTGTTCCGGTGCGGGCCTCCGCAG
Seq C2 exon
CCCTCAAGCTGGACTTGGAAGAGAAGCTGTTTGGACAGCACCTTGCCACCGAAGTGATTCTCAAGGCATTGACTGGCTTCAGGAACAACAAAAATTCCAAGAAACCATTGACTCTGTCCTTGCACGGCTGGGCTGGCACGGGCAAGAATTTTATCAGCCAGATTGTGGCTGAAAACCTTTATCCAAAAGGCCTGAAGAGTAACTTTGTCCACCTGTTCGTCTCTACTTTGCACTTCCCTCATGAGCAGAAGATAAAGGTGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026848:ENSMUST00000028199:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.001
Domain overlap (PFAM):
C1:
PF063096=Torsin=PU(12.7=23.9)
A:
NA
C2:
PF063096=Torsin=PU(90.2=97.9)
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:
TGAGACGAATCGGAGCGTTTG
R:
TAAAATTCTTGCCCGTGCCAG
Band lengths:
351-879
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