MmuINT1034118 @ mm10
Intron Retention
Gene
ENSMUSG00000045136 | Tubb2b
Description
tubulin, beta 2B class IIB [Source:MGI Symbol;Acc:MGI:1920960]
Coordinates
chr13:34128872-34129354:-
Coord C1 exon
chr13:34129246-34129354
Coord A exon
chr13:34128983-34129245
Coord C2 exon
chr13:34128872-34128982
Length
263 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATT
5' ss Score
5.99
3' ss Seq
CAGCTCTTGTTCTTCTGCAGGTA
3' ss Score
9.81
Exon sequences
Seq C1 exon
TTTTGGGAGGTCATCAGTGATGAGCATGGTATAGACCCCACTGGAAGTTACCATGGAGACAGTGATTTGCAACTGGAAAGAATCAATGTATACTACAATGAAGCAACTG
Seq A exon
GTAATTACTTTTAACACCCCATCTTCAATTCTGGCATCCCTAAGCTCTGCTCTTATTTGAACCCAGGAGAAGGTGGCTTATTTTAGGATGACCATTTTTGGGGTGGGGTAGCCTCTTCTGTGCCAACCAAACCCTTTGAAAGCTTGGTCATAATAGACCTTTCTTTGTTTGGGGGTACCACCAAACAGGAAGGAGGTGGGACCGAGCCCTACTCTATAGAAGATACTGCCTGGAGGGCTAAGCCAGCTCTTGTTCTTCTGCAG
Seq C2 exon
GTAATAAATATGTGCCTAGGGCCATCCTGGTGGACCTGGAGCCAGGCACAATGGACTCAGTCAGGTCTGGACCATTTGGGCAGATCTTCAGGCCGGACAACTTCGTGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045136:ENSMUST00000075774:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.026
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGGGAGGTCATCAGTGATGA
R:
CGAACACGAAGTTGTCCGGC
Band lengths:
220-483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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