MmuINT0132973 @ mm10
Intron Retention
Gene
ENSMUSG00000031134 | Rbmx
Description
RNA binding motif protein, X chromosome [Source:MGI Symbol;Acc:MGI:1343044]
Coordinates
chrX:57391272-57391698:-
Coord C1 exon
chrX:57391567-57391698
Coord A exon
chrX:57391379-57391566
Coord C2 exon
chrX:57391272-57391378
Length
188 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CACCCCCCCAACTGTTTCAGTTC
3' ss Score
7.32
Exon sequences
Seq C1 exon
ACCCCCATCGGTTAAGAGGAAAAATGGTTGAAGCAGATCGCCCAGGAAAGCTCTTTATTGGTGGGCTTAATACAGAGACGAATGAGAAAGCCCTTGAGGCAGTGTTTGGCAAATATGGACGAATAGTGGAAG
Seq A exon
GTGAGTTATCTAAAATCGTATGATATATTAATAAAATTAAAAGACAAGCTGTGATGAATTTGAATCCACTGATCTTCCGACATGATAAATGCATTGTCCTCTAAGAAGTTCTGAGCTTGCTTCTCGCAGATGTGCGCTGATTATCTTTGTTTGAATGAAACTAAACCCCACCCCCCCAACTGTTTCAG
Seq C2 exon
TTCTTTTGATGAAGGACCGAGAAACGAATAAGTCAAGAGGATTCGCTTTTGTCACTTTTGAAAGCCCAGCAGATGCAAAGGATGCTGCCAGAGACATGAATGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031134:ENSMUST00000140384:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.203 A=NA C2=0.657
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=73.0)
A:
NA
C2:
PF0007617=RRM_1=FE(49.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCCCATCGGTTAAGAGGAA
R:
CCATTCATGTCTCTGGCAGCA
Band lengths:
235-423
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