MmuINT0168116 @ mm10
Intron Retention
Gene
ENSMUSG00000001525 | Tubb5
Description
tubulin, beta 5 class I [Source:MGI Symbol;Acc:MGI:107812]
Coordinates
chr17:35833921-35836273:-
Coord C1 exon
chr17:35836163-35836273
Coord A exon
chr17:35836040-35836162
Coord C2 exon
chr17:35833921-35836039
Length
123 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TTTCCCTTACTGCATTCCAGGTC
3' ss Score
9.71
Exon sequences
Seq C1 exon
GTGGCAAGTATGTCCCTCGAGCTATCTTGGTGGATCTAGAACCTGGGACTATGGACTCCGTTCGCTCAGGTCCTTTTGGCCAGATCTTCAGACCAGACAACTTCGTTTTCG
Seq A exon
GTGAGTTAGGTGGAATCGATTTCTATTTGCTCAACTGAATTATTCCAGTCGTTGAAAGATTAAGAAGTATTTGTGTTTCTCTCATATCTTAGTGATTAAACCTTTTCCCTTACTGCATTCCAG
Seq C2 exon
GTCAGTCTGGGGCAGGCAACAACTGGGCTAAAGGCCACTACACAGAGGGAGCTGAGTTGGTTGACTCTGTCTTGGATGTGGTGCGGAAGGAGGCGGAGAGCTGTGATTGCCTGCAAGGCTTTCAGCTGACCCACTCACTGGGTGGAGGCACTGGCTCTGGCATGGGCACCCTGCTCATCAGCAAGATCCGGGAAGAATATCCTGACCGTATCATGAATACCTTCAGTGTGGTGCCCTCGCCCAAAGTGTCTGATACCGTGGTCGAGCCCTACAATGCCACCCTGTCTGTCCATCAGTTGGTTGAGAACACGGATGAGACCTACTGCATCGACAACGAGGCCCTCTACGACATCTGCTTCCGTACCCTCAAGCTCACCACGCCAACCTACGGAGACCTGAACCATCTCGTCTCGGCCACCATGAGCGGCGTCACCACCTGCCTCCGTTTCCCGGGCCAGCTTAATGCTGACCTTCGAAAGCTGGCTGTCAACATGGTGCCATTCCCACGTCTCCACTTCTTCATGCCTGGCTTTGCCCCTCTCACCAGCCGTGGAAGCCAGCAGTACCGGGCCCTCACTGTGCCTGAACTTACCCAGCAGGTCTTCGATGCCAAGAACATGATGGCCGCCTGCGACCCGCGCCACGGCCGGTACCTCACAGTTGCCGCCGTCTTCCGTGGACGGATGTCCATGAAGGAGGTGGATGAGCAGATGCTCAACGTGCAGAACAAGAATAGCAGCTACTTCGTGGAATGGATCCCCAACAATGTCAAGACAGCTGTCTGTGACATCCCACCGCGTGGCCTCAAGATGGCAGTCACCTTCATTGGAAACAGCACAGCCATCCAGGAGCTCTTCAAGCGCATCTCTGAGCAGTTTACGGCTATGTTCCGCCGGAAGGCTTTCCTCCACTGGTATACGGGTGAGGGCATGGACGAGATGGAGTTCACCGAAGCTGAGAGCAACATGAACGACCTCGTCTCTGAGTACCAGCAGTACCAGGATGCCACCGCGGAAGAGGAAGAGGATTTCGGAGAGGAGGCAGAAGAGGAGGCCTAAGGCAGAGAGCCCTGCATCAGCTCAGGCTGCTTAGATCCCTCAGCTTTCTCCAACTGCCCTTTGTCCTCCAGTTTCTTTCTGCTGCCTCTGTCTTGTATTTGTTTTGTTCTGTTTTCTCATTGGGGGTAAATGGTGCCTGGCACATGGCAGGCACTCAATAAATATTTGTTTGTGGAATGTCTCCTTTCTCTTTCCACTCTGACAAACTTAGATTTCTGACATTCTGGTTGTTACCCTGTGCTTCCTACTGGTATCTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCCAGACAGGGTTTCTCTGTATATATAGCCCAGGCTGTCCTGGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGTTGGGATTAAAGGCGTGTGCCACTATCACCCAACAAGTATCCATTTTTTTAAATTATTATTTGACTGTCCAGTTAATATTCCAGAATATTCTCCAGAAACCTGAGGTCTGCTCCAGATCCTGTGTAGAACCCAGCCCAATTCTAAGAACTCGGATAGTAACCATCATCTTAAAGCAAAGTAGTGGATCAGGGATGCTAGGTAGAGACCACCAGGAAGAGAAGGGGGTGGGGTTTTCCAGTCAGGGCCATTTAGAATCCACCTATGCTTTCAGTCAGCAGGGCTTTGTTTTGTTTTTCTCCTGCCTCATCTCTCAGCCTCAGGAGAGGTATTAACAGTATTATCTCCATTTATATCCTCCCAGCTGTCCTGAGCCAAATCTGCCATTGGAAGTGTCTTCCCTGTATTGGTTCTCCTTTCTCGGAGAGATGGGGGTTGGGGGTGCGGCAAGGTCTTGGTCTTGGTCTCTGAACACTCCCAATTCCCGCTGAAACTCCACACTTGGGAAAGTATGTTTCCACCTGGGTCTTTCAGACACTGCCCAGATGGGCTGTCACCACCTCTGCCCCATGCTCCTCCTGCCCTTGGCTTGGTCATTTCCTACCTTTCTATTTCGTGTTGTACCTGCTTTTTTTTTTTTTTTCATATTGAAAAGTTGACATCGCCCCAGAGCCAAAAATAAATGGGAATTGGAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001525:ENSMUST00000001566:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.093
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=PU(30.3=95.2)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.1),PF0395312=Tubulin_C=WD(100=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCAAGTATGTCCCTCGAG
R:
GTGAGTGGGTCAGCTGAAAGC
Band lengths:
249-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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