MmuINT0168097 @ mm10
Intron Retention
Gene
ENSMUSG00000016255 | Tubb1
Description
tubulin, beta 1 class VI [Source:MGI Symbol;Acc:MGI:107814]
Coordinates
chr2:174455657-174456700:+
Coord C1 exon
chr2:174455657-174455765
Coord A exon
chr2:174455766-174456589
Coord C2 exon
chr2:174456590-174456700
Length
824 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGG
5' ss Score
7.68
3' ss Seq
GTTGCAACTAATCTGCACAGGTA
3' ss Score
3.28
Exon sequences
Seq C1 exon
TTCTGGGAGGTGATCGGGGAAGAACATGGGATTGACTGCGCTGGGAGCTACTGTGGGACGTCTGCTCTCCAGCTGGAGAGGATCAGCGTTTACTACAACGAAGCCTACG
Seq A exon
GTAGGGCTGCCTGCTGGGTGAGCTCTGGCCTGTCATCTGGGCGGCGTGGGCAGAGAAGATGACCCTAGTGTGAAAGAATGGAGTCCCAGCATGGAACGGGCAGGCATGCAGGGTTTTGGAGTCTGGATGGCGAGTGGCCCACTCCAGTTGCAAGGGTCGGGATGAGGTGCATTCAGCCTTGTGTCAGCCAGCCACTCCCCACAGCAAGGGAGAGAAGCCATGCTCTTGCTGAGACAACGAGCTAGACACACAGGAAAGACAGAAGTAGAGTTTTTAAAAGGTATTTTTACAGATCCATGTCATGGTGGGCTGGGTCAGATACGATCATAGAAAATAAAATGTCTGCTTACTCTCTTCTCTCACTCGCTTCTTCCTGCTCTGTCCGTCCCTTCTTTCCCCATTCCAGTTCCCACTCTCTCTCCACATGCTCATGGCCAGCCTCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCTCTCTCTCTCTCCCCCTTCTCTGTCTCCATTACCTCCTCAACTTCCCTCCCCATGCCCTAAATAAACTCTATTCTATACTGAAAAAAAAAGAACAAAAGAGAGAGAGTGAAAAAGAGAGAGGGAGAGAGAGAGGAAGGAAGGAAGGAAGAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGGAAGGAAGGAAGGAAGAAGATGTCCACTTACCAAAGGCCTCCCTTAAGATACTCATGGTTTTTGGACCAGCATCCCTAGGATCCATTTCAGTGAAACAGTAACCTTTAGAAAAACAGCCACCTGCTGACTTGTTGCAACTAATCTGCACAG
Seq C2 exon
GTAAGAAGTATGTGCCGCGAGCCGTCCTTGTGGACCTGGAACCCGGGACAATGGACAGCATCCGATCCAGCAGATTGGGAGTCCTCTTTCAGCCTGACAGTTTTGTTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016255:ENSMUST00000016399:2
Average complexity
IR
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:
PF0009120=Tubulin=FE(16.2=100)
A:
NA
C2:
PF0009120=Tubulin=FE(16.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGTGATCGGGGAAGAACA
R:
CATGAACAAAACTGTCAGGCTGA
Band lengths:
215-1039
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