MmuINT0168112 @ mm9
Intron Retention
Gene
ENSMUSG00000062591 | Tubb4
Description
tubulin, beta 4A class IVA [Source:MGI Symbol;Acc:MGI:107848]
Coordinates
chr17:57225415-57225762:-
Coord C1 exon
chr17:57225654-57225762
Coord A exon
chr17:57225526-57225653
Coord C2 exon
chr17:57225415-57225525
Length
128 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TCCATCTGCCATCCCCACAGGTG
3' ss Score
11.59
Exon sequences
Seq C1 exon
TTCTGGGAGGTCATCAGTGATGAGCACGGCATCGACCCCACTGGGACCTATCATGGGGACAGTGACCTCCAGCTGGAGAGGATCAATGTCTACTACAATGAGGCCACAG
Seq A exon
GTAGGGTAGTCAGTGGGCTGGCACGGGCGTGGGAGTGGGGGGGCACTGTCACGAAGGGACAGGATGTGCCCTGGAGCCTGCTGGACCTGGCACTCAGCCCAGCCACCCTCCATCTGCCATCCCCACAG
Seq C2 exon
GTGGAAACTATGTTCCCAGAGCCGTGCTGGTCGACCTGGAACCCGGCACCATGGACTCTGTCCGCTCCGGCCCTTTTGGCCAGATCTTTCGGCCAGACAACTTTGTATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062591-Tubb4:NM_009451:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.162 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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGGAGGTCATCAGTGATGA
R:
CAAATACAAAGTTGTCTGGCCGA
Band lengths:
219-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: