MmuINT0168104 @ mm9
Intron Retention
Gene
ENSMUSG00000045136 | Tubb2b
Description
tubulin, beta 2B class IIB [Source:MGI Symbol;Acc:MGI:1920960]
Coordinates
chr13:34218877-34220851:-
Coord C1 exon
chr13:34220741-34220851
Coord A exon
chr13:34220401-34220740
Coord C2 exon
chr13:34218877-34220400
Length
340 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
ATCCTCCTTTGCTCTTTCAGGCC
3' ss Score
11.61
Exon sequences
Seq C1 exon
GTAATAAATATGTGCCTAGGGCCATCCTGGTGGACCTGGAGCCAGGCACAATGGACTCAGTCAGGTCTGGACCATTTGGGCAGATCTTCAGGCCGGACAACTTCGTGTTCG
Seq A exon
GTGAGTATGTGGCATAGCTGAAGACAGAAGAGCACAAGGTGTTAATTATCACTAGCACAAAGGGTGGAGGAGTGTGATAGACAGGGAGCATACATAGCAGTGGCGCCTAAGCCTTATCAGGCTTTGAGGCAATTGCATCTTAGCTTTTTCAAAGGCAGGTGTGCTCTGTTAACTCATTTATAATTGTATTGATAACCAAATAGTTTATTGCTTTATTATTTATTGGCCATTTGATAATAATTTGAAATAGCCTTATCTGAGAGGTGATTCTTTTTTTTTTTTTTTTTAAAGAAGGAATTTTCCCAATCATGGCTGACTTAATCCTCCTTTGCTCTTTCAG
Seq C2 exon
GCCAGAGTGGTGCAGGAAATAACTGGGCAAAGGGCCACTACACAGAGGGGGCCGAGCTGGTGGACTCTGTCCTGGACGTGGTGAGGAAGGAGTCAGAAAGCTGTGACTGTCTTCAGGGCTTCCAGCTGACCCACTCACTGGGGGGAGGCACTGGCTCAGGCATGGGGACCCTGCTCATCAGCAAGATCAGAGAGGAGTACCCAGACCGCATCATGAACACCTTCAGCGTCATGCCCTCACCCAAGGTCTCTGACACTGTGGTGGAGCCCTATAATGCCACCCTCTCAGTGCACCAGCTGGTAGAGAACACAGATGAAACCTACTGCATCGATAATGAGGCTCTGTATGACATCTGTTTCCGCACCCTGAAGCTGACCACACCCACCTATGGCGATCTCAACCACCTGGTGTCAGCCACCATGAGTGGAGTGACCACCTGCCTGCGCTTCCCAGGCCAGCTGAACGCAGACCTGCGCAAGCTGGCCGTGAACATGGTGCCATTCCCACGCCTGCACTTCTTCATGCCAGGCTTTGCACCTCTGACCAGCCGGGGCAGCCAGCAGTACCGAGCCCTGACGGTGCCCGAGCTGACCCAGCAGATGTTCGACTCCAAGAACATGATGGCTGCCTGCGACCCTCGCCATGGCCGCTACCTGACCGTGGCCGCCATTTTCCGTGGCCGCATGTCCATGAAGGAGGTGGATGAGCAGATGCTCAACGTGCAGAACAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAACAACGTCAAGACGGCCGTGTGTGACATCCCTCCTCGTGGCCTCAAGATGTCAGCCACCTTCATTGGCAACAGCACTGCCATCCAGGAGCTGTTCAAGCGCATCTCGGAGCAGTTCACTGCTATGTTCCGGCGCAAGGCTTTCCTGCACTGGTACACGGGTGAGGGCATGGACGAGATGGAGTTCACCGAGGCGGAGAGCAACATGAATGACCTGGTGTCTGAGTACCAGCAGTACCAGGATGCCACGGCTGATGAGCAGGGCGAGTTCGAGGAGGAAGAGGGCGAGGATGAGGCTTGAGTTCCCCAGGCCAAGCAGGTTAGGGAAAGCTGAGATGAAAGGAGGGGGTGGGGGGGCTTAATCTGTGAAAATACCTTGGCAGTTGAAGGAAGGAGAATGGTCTTAGGTTTGTGCTGGGTCTCTGGTGCTCTTCACTGTTGCCTGTCACTTTTTTTCTCTTTTTGTAATACCGATAACATCAATGTAACACTTGAGATCTTTCTGAACTCCTGTTGTAATGGCTAAAATCACATAAACCTTTGTGTCCTAACGGTGTCCTCTTTTCTTTCTCTTCCTTTCTCCCTATCAAGCTCTTTGTTATCAACTTAAATCCACCTTTCTGAACACAGAAAATTTTCTTCCTTTAGAAAAGACTGAAAGCTCAGGTGTTTGTTTCTTCTTTGGGTATGCTATTAATATAAGTTGAACCAAAAATGGCCTTACTCAATCCAACAATGAGAAGAAACAATGGATTTTAAGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045136-Tubb2b:NM_023716:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.0),PF0395312=Tubulin_C=WD(100=34.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACAATGGACTCAGTCAGG
R:
TGGCATTATAGGGCTCCACCA
Band lengths:
346-686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: