MmuINT1034116 @ mm10
Intron Retention
Gene
ENSMUSG00000058672 | Tubb2a
Description
tubulin, beta 2A class IIA [Source:MGI Symbol;Acc:MGI:107861]
Coordinates
chr13:34076178-34076657:-
Coord C1 exon
chr13:34076549-34076657
Coord A exon
chr13:34076289-34076548
Coord C2 exon
chr13:34076178-34076288
Length
260 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GTCAGCTCTTGTCCCCACAGGCA
3' ss Score
10.75
Exon sequences
Seq C1 exon
TTTTGGGAGGTGATAAGCGATGAGCATGGCATCGACCCCACTGGCAGTTACCATGGCGACAGTGACTTGCAGCTGGAGAGGATCAATGTGTACTACAATGAAGCTGCTG
Seq A exon
GTAAGAGTTTGGATGTCAGTCTCGCTTTCCATACCGTGACAGAGAAAGCAGCCTACCAGCATGCAGACAAGGAAATGGTTTTTTTGCATATTCATTTTTTTTAAAAAAGCACTTCATAATTCCTGAAGACCTCTGCATGCTTTGTGTCTCCATTTTCTTTTTCCTCCTTTGTCTCAATGCTGGGATTTCTGCAATGAATTCTTTTGCCACATTCATCTCCTTTCTCAAGCCCAATTGTAAGTCAGCTCTTGTCCCCACAG
Seq C2 exon
GCAACAAATATGTACCTCGGGCCATCCTAGTGGACCTGGAGCCGGGCACCATGGACTCAGTGAGGTCGGGACCATTCGGCCAGATCTTCAGGCCAGACAACTTTGTGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058672:ENSMUST00000056427:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 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:
TTTTGGGAGGTGATAAGCGATGA
R:
CGAACACAAAGTTGTCTGGCC
Band lengths:
220-480
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