MmuINT1034124 @ mm10
Intron Retention
Gene
ENSMUSG00000036752 | Tubb4b
Description
tubulin, beta 4B class IVB [Source:MGI Symbol;Acc:MGI:1915472]
Coordinates
chr2:25222160-25224044:-
Coord C1 exon
chr2:25223934-25224044
Coord A exon
chr2:25223369-25223933
Coord C2 exon
chr2:25222160-25223368
Length
565 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CCTACTGTTTTCTCTTACAGGTC
3' ss Score
13.54
Exon sequences
Seq C1 exon
GTGGCAAGTATGTGCCCCGCGCCGTGCTCGTGGACTTGGAGCCCGGCACCATGGACTCGGTGCGTTCAGGGCCCTTCGGGCAGATCTTCAGACCTGATAACTTCGTCTTTG
Seq A exon
GTGAGTGTGGTGGAGGTGTGGACGGGCTTGCTACCCATGAGGCTCAAAGGTCAAGGGGCTGACCTAAAGTTCTTCCTTAATAGCCACCAGGTGTACACTTTCTTGCCCTCTGAGTCACTCAATCCCTTGGCCGAAAGCAGCTTTAGGAGGAAGGTCCAACTGACTGCGGGTAGATTAGTTGCTAGTAGAGAGTATGAGAAGACCTGACCTAGTGGCAGGGGCCCTGTACTCTCCTTGAACATTGGCAGGGGTGCCTTTGGAAGTATTTACTGTCTTAGCTCTAGTGTGTTCTGTACATCTCCGTCTGGTCTCCCCCACCCCCCATCCCCAATCTATGTATCCCTGCCTGGCCTCTTTAACTGTAGACCAGGCTGACCTTAAACTCAGAACTACCTGCCTACCAAGTGCTGGGATTAAAAGCTTGTGCCATTATGCACAGCACCCCCTCTCCCCTTTTTTTTAACATGGCAGATTGTTTTGGGTCTGTACACTTTATTCAGTGTCACCTCATGTCATTTGGCCCCTTGGGCACATACTTAGTGTGACCTACTGTTTTCTCTTACAG
Seq C2 exon
GTCAGAGTGGGGCTGGGAACAACTGGGCCAAGGGGCACTACACAGAAGGTGCAGAGCTGGTTGACTCGGTGTTGGACGTTGTGAGAAAGGAAGCTGAGAGCTGTGACTGCCTGCAGGGCTTCCAGCTGACCCACTCCCTGGGTGGGGGGACTGGGTCTGGGATGGGTACCCTCCTTATCAGCAAGATCCGGGAGGAGTACCCAGACAGAATCATGAACACCTTCAGTGTGGTACCTTCCCCCAAGGTGTCGGACACAGTGGTTGAGCCCTACAATGCCACCCTTTCAGTCCACCAGCTGGTTGAAAACACAGATGAGACCTATTGTATTGATAATGAAGCACTTTATGACATCTGCTTCAGAACCCTAAAGCTGACCACACCCACTTACGGTGACCTGAACCATCTAGTGTCCGCCACCATGAGTGGGGTAACCACTTGCCTGCGATTCCCTGGCCAGCTAAATGCTGACCTGCGGAAACTGGCTGTAAATATGGTGCCCTTCCCTCGCCTGCACTTCTTCATGCCTGGCTTTGCCCCCTTGACCAGCCGGGGCAGCCAGCAGTACCGTGCCCTGACAGTTCCTGAGCTCACCCAGCAGATGTTTGATGCCAAGAACATGATGGCTGCCTGTGATCCAAGACATGGGCGCTACTTGACTGTGGCTGCCGTGTTCAGGGGCCGCATGTCTATGAAGGAGGTGGACGAACAGATGCTTAATGTCCAAAACAAGAACAGCAGCTACTTTGTTGAGTGGATCCCCAACAATGTGAAGACAGCTGTCTGTGACATTCCACCTCGGGGCCTGAAAATGTCGGCCACCTTCATTGGCAACAGCACCGCTATTCAGGAGCTGTTCAAACGCATCTCAGAGCAGTTCACAGCCATGTTCCGACGCAAGGCCTTCCTACACTGGTACACGGGTGAAGGCATGGATGAGATGGAGTTCACTGAGGCTGAGAGCAACATGAACGACCTGGTGTCCGAGTACCAGCAGTACCAGGACGCTACAGCTGAGGAAGAGGGAGAGTTTGAGGAGGAGGCTGAGGAGGAGGTGGCTTAGAGCTGTCTTAGTCACTAAAGCATGGGAGCAGTGTGAACTCTTTATTCATTCACAGCCTGTCTGCTAGCCATGTCCACTGTGCATTTGCTGTCCTGTGTCCTGACATCACTTGTACAGATACCACCATTAAAGCAATTCATAGTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036752:ENSMUST00000043584:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGACTCGGTGCGTTCAG
R:
GGACTGAAAGGGTGGCATTGT
Band lengths:
353-918
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