MmuINT1029638 @ mm10
Intron Retention
Gene
ENSMUSG00000031167 | Rbm3
Description
RNA binding motif protein 3 [Source:MGI Symbol;Acc:MGI:1099460]
Coordinates
chrX:8143848-8144679:-
Coord C1 exon
chrX:8144573-8144679
Coord A exon
chrX:8143948-8144572
Coord C2 exon
chrX:8143848-8143947
Length
625 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGTCTCCTTCCCATACCTAGTCC
3' ss Score
7.66
Exon sequences
Seq C1 exon
TGGTTGTTGTCAAGGACCGGGAGACTCAAAGATCCCGGGGTTTTGGCTTCATCACCTTCACAAACCCAGAGCATGCCTCAGATGCGATGAGAGCTATGAATGGAGAG
Seq A exon
GTGAGGCCTCCTGCCTGCACAGGGGCCGTCTCCCTGTCTGCCACTTTCTTCGTTCTTTCTGTTTTCCCTCTATGTCTGCCAGGGGCAGCGTGGCCACTCACAGGAGCATGACTGCCTTCTGTTCTAGGGGGTGGAGGGCAGCGGCAGACAGAGCCGGGCTGCCTGGGAGGCGACGACTGGTCCTGCATGAGGCGGAGAAGCCACCTGTGGATGGTTGACCTGCTCTGGGCTTAGGTAGTAGAGTCTGCAGAGCTGTGGGCCTGGCAGAGGACCGGAGAGGACCTCGTGAGTCTGCTGGGATGGACTCTGAAGCCTCAGACCGAGAGAGGTGTCTAGCCCTAATAGTCGGGCAGCTTAGAGGAGTGGGGAGGATACGTCAGCCTGAGTTCAGTCAAGATGTAAGTAGTAGCAGGGGAGACCGGTGGATTCAGGTCTTTTTGTGGGATTCCATAGCTCCTGGTGAAGCCATTCTGGTCAGCGGAGCTTGGCTTGGACGAGGCACCCAGAATTTGGTGCCCAGCAGGAATTTCTGGGCTCTTGCCTACACCTACCTGCCTGTGCCCATTCTTCCCTCATCCCTACTGTGACTGACAATTCCTTGTGTCTGTCTCCTTCCCATACCTAG
Seq C2 exon
TCCCTGGATGGGCGCCAAATCCGAGTTGATCATGCAGGAAAGTCTGCCAGGGGATCCAGAGGGGGTGCCTTTGGTGGGCGTGGTCGCAGTTACTCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031167:ENSMUST00000115621:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(49.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=20.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGTTGTCAAGGACCGGG
R:
CTCTAGAGTAACTGCGACCACG
Band lengths:
206-831
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