MmuINT1034117 @ mm10
Intron Retention
Gene
ENSMUSG00000045136 | Tubb2b
Description
tubulin, beta 2B class IIB [Source:MGI Symbol;Acc:MGI:1920960]
Coordinates
chr13:34129246-34130354:-
Coord C1 exon
chr13:34130177-34130354
Coord A exon
chr13:34129355-34130176
Coord C2 exon
chr13:34129246-34129354
Length
822 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
ACAGTCTTTTTATGTCACAGTTT
3' ss Score
7.31
Exon sequences
Seq C1 exon
CTCAGCCCGTAGCCCGTCGGTTCCGGAGTAAGTTCCAGGTGGCCCAGCAGTGGGTGTGGAAGGGGAGGATCATCAGACCCACTGACACAGACCCAAGACAGCAAGAAGCTAACCAGGCACCATGCGAGAGATCGTGCACATTCAGGCGGGCCAGTGCGGCAACCAGATCGGTGCCAAG
Seq A exon
GTGGGTTCACTGCTTAGGGGGTGAGGGAGGGACCCTAACGGAGCTCCCCTCGGGATAGGTGGGGTCCAAAATGAGGCGCGGCTCTAGGTAAATACCAGGACTCACCAACGGCGGACCTGACTTGCGGTTTTGTGCAGTCGGATGGGCGTGGTCTCAGAGGAGACTTTAAAGCAAAGGGGTCTCATTCATTTTTCCTGGAACTATTCGGAATTTGAGCTGCCCCATTTTCTTTCCTCCCTAATAGCCACGAGTGCCTAAAGAAGACGTGGGTGTGTCTGCTAGGCTGTGCATGCCGGTCTTAGGGAGGGGCCGCGACACAGGAGAATTGATTTTACTCGCTTGATCACCAGGCGAGCTGCGGGGGAGGGGAGGAAGAACGATTGCCAGACGGTCACTGAACGTGCTTTGAATTTAAAACATCACCCTACAGCTTCCTCGCTTCACTCTCCCCGCCGGCCCCCTTTTCTCCTTGCCTATAGTCCCAGCGCGTTTGTCTCCAGCTGCCAGTGGTGGCTGTGACTTGCCAACCCAGCTTGGGCTGTTTTTTCACACACACACACACACACACACACACACACACACACACACACACACACACACACACACCCTACCTCCTGCTGAGAGCAGCTGTTCTCATGGGAAACCGCCCAGTTTCAACTTTCTGATCCTCTACAATGCAAGCCCTAAGGCTGTGCCTGGGTCATGCCACTCATTAAAGCTTCGGCAACGTCCTGTTGTCAAAACTGTGGGTGATGGGGGGGCTGCTCATTGAGATTGGGGGTAGGGTTGTGCATAGCTAAATACAGTCTTTTTATGTCACAG
Seq C2 exon
TTTTGGGAGGTCATCAGTGATGAGCATGGTATAGACCCCACTGGAAGTTACCATGGAGACAGTGATTTGCAACTGGAAAGAATCAATGTATACTACAATGAAGCAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045136:ENSMUST00000075774:1
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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAGCCCGTAGCCCGTC
R:
GTATACATTGATTCTTTCCAGTTGCA
Band lengths:
271-1093
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