MmuEX0040576 @ mm10
Exon Skipping
Gene
ENSMUSG00000039087 | Rreb1
Description
ras responsive element binding protein 1 [Source:MGI Symbol;Acc:MGI:2443664]
Coordinates
chr13:37929558-37947504:+
Coord C1 exon
chr13:37929558-37932489
Coord A exon
chr13:37941543-37941704
Coord C2 exon
chr13:37946857-37947504
Length
162 bp
Sequences
Splice sites
3' ss Seq
ATTTTTTTTTCCTGCTTCAGGTC
3' ss Score
11.01
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
Exon sequences
Seq C1 exon
CCCAGGAAGCTCCATCCCCAAAGCTGCCGCCACCCCCACTGACACCACAAGCTCTAAAGAATCCAGTGAGCCACCCCCTGCAGCCAGCAGCCCTGAGGAAGCCTTGCCTACTGAACAAGGGCCGGCTGCCACTTCCTCGTCGAGGAAGAGGGGCAGGAAAAGGGGACTGAGAAACCGGCCCCTCCCCAACAGCAGTGCTGTGGACCTGGACTCCAGTGGGGAGTTTGCTAGCATCGAGAAGATGCTGGCCACCACAGATACCAACAAGTTCAGTCCCTTTCTGCAGACTGCAGAGGATGACACTCAGGAAGAGGTGGCTGGAGCCCCTGCCGACCAGCATGGGCCCGCTGATGAGGAGCAAGGTAGCCCCGCAGAAGACAGGCTGCTGAGAGCAAAGCGGAACTCCTATGCCAACTGCCTGCAAAAGATCAACTGTCCCCACTGTCCCCGGGTCTTCCCTTGGGCCAGCTCCCTGCAGCGGCACATGCTTACACACACTG
Seq A exon
GTCAGAAACCCTTCCCTTGTCAAAAATGCGATGCCTTCTTTTCTACCAAATCTAACTGTGAGCGGCACCAGTTGCGCAAACACGGAGTTACCACCTGCTCCCTGAGAAGAAACGGGCTTATTCCCCCAAAAGAGAGTGATGTTGGATCCCATGATAGCACAG
Seq C2 exon
ACAGCCAGTCAGACACAGACACGTTGACCACCCCAGGTGAGGTGCTGGATCTCACAGCACAGGCTAAAGAGCAGCCGCCAGCAGAGGGAGCCAGTGAGATCAGTCCGGCTTCACAGGACCTTGCTATCAAAGAGGCCAAAGCAGCAGCAGCTCCCTCTGAGGAGGAGGAAGAAAAGGAGACAGAGGAGAACCCAGAGCCAGAGGAAGAGTGTCGTGTGGAAGAGAGCACTGGGGCTGCAGATGCCCCCGAGGAAGACACAGCCAGCAACCAGAGCCTGGATCTTGACTTCGCCACCAAGCTGATGGACTTCAAGCTGGCAGAGAGTGAGGCAGGCTCTGTGGACAGCCAAGGCCCAGCCCAGCAGGAGCCAAAGCATGCCTGCGATACCTGTGGAAAGAACTTCAAGTTCCTGGGCACCCTGAGTCGCCACAAGAAGGCACACAGCTGCCAGGAGCCGAAGGAGGAGGAAGCAGCGGCACCTTCGCTGGAGAATGAGGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039087_MULTIEX2-4/5=3-5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.372 A=0.455 C2=0.929
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=WD(100=2.8),PF134651=zf-H2C2_2=WD(100=2.6),PF134651=zf-H2C2_2=WD(100=2.7),PF134651=zf-H2C2_2=WD(100=3.6),PF134651=zf-H2C2_2=PU(38.5=1.0)
A:
PF134651=zf-H2C2_2=PD(57.7=27.3)
C2:
PF134651=zf-H2C2_2=PU(40.0=3.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAAGCGGAACTCCTATGC
R:
TGCTGCTTTGGCCTCTTTGAT
Band lengths:
256-418
Functional annotations
There are 1 annotated functions for this event
PMID: 21703425
In vitro proliferation studies using the UMUC-3 bladder cancer cell line after selective isoform-specific knockdown of expression indicate that RREB1alpha (all included) is not necessary for proliferation, but that RREB1beta (skipping exon 8, HsaEX0055741) may be required.
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