MmuINT1034122 @ mm10
Intron Retention
Gene
ENSMUSG00000036752 | Tubb4b
Description
tubulin, beta 4B class IVB [Source:MGI Symbol;Acc:MGI:1915472]
Coordinates
chr2:25224124-25224702:-
Coord C1 exon
chr2:25224534-25224702
Coord A exon
chr2:25224233-25224533
Coord C2 exon
chr2:25224124-25224232
Length
301 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
AACGCCCGACTCCCTTGCAGTTC
3' ss Score
6.5
Exon sequences
Seq C1 exon
GGCGGGTCATAAGAGGTATATAAATGTTGGCAGAGCGTCGGTTGTAGCACTCTGTGCGCCTGCTCCTCCCGAAGTGCTCCTCTTCTACAGCTGTTCCGCAGTCGCCGCCGCCATGAGGGAGATCGTGCACCTGCAGGCTGGGCAGTGCGGCAACCAGATTGGCGCCAAG
Seq A exon
GTAGGAGGCTAGGTTTCTGCGAGCCAGACGCCACTGGGACAGCCAGCCGGGGAAGATGGCGGAAGCGGCCCGGAGCGTCGCCCTTCATTGCGTCCTGGATACCGGCGTACGCTGGGCCGAGACGTAGCGCCGGTGGCTGGTGTCGGTGGGGCGGACGGTGCGCGGCCCTTAGGGATTCGTCGCCCTGGCGCTCCTGAGACTGGAGGGAGGGGGAGGGCCTGCCGCACCCATCCGGGGCGGGGCTGCCTTGGAGCGCACCGGCCGGCCGGCGTGACTCAGCTAACGCCCGACTCCCTTGCAG
Seq C2 exon
TTCTGGGAGGTAATCAGCGACGAGCATGGCATTGATCCCACTGGCACTTACCACGGAGATAGCGACCTCCAGCTGGAGCGCATCAACGTGTACTACAACGAAGCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036752:ENSMUST00000043584:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.135
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(7.2=84.2)
A:
NA
C2:
PF0009120=Tubulin=FE(16.2=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:
GGCGGGTCATAAGAGGTATATAA
R:
CGGTGGCTTCGTTGTAGTACA
Band lengths:
278-579
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