MmuINT0066459 @ mm9
Intron Retention
Gene
ENSMUSG00000028034 | Fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:MGI Symbol;Acc:MGI:1196294]
Coordinates
chr3:151880940-151881234:+
Coord C1 exon
chr3:151880940-151881011
Coord A exon
chr3:151881012-151881176
Coord C2 exon
chr3:151881177-151881234
Length
165 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACA
5' ss Score
4.6
3' ss Seq
TTCTTTTTATTTAATTGTAGATA
3' ss Score
8.76
Exon sequences
Seq C1 exon
TAATTGGCAGAGGAGGTGAACAGATCTCACGAATACAGCAGGAATCTGGATGCAAGATACAGATAGCACCTG
Seq A exon
GTAACATTCCGTGTGTGTGTGTGTGTGTGTACGAATTACTTGTTGTTTTGTCCAGTTCTTACAGTTTTTTGAGAGTGGCTAGGAAACTCAAGTATTTTAAGTTTCTAAATATCTGATATTTTTATTGTATTTTTTACTTAAACTTTTCTTTTTATTTAATTGTAG
Seq C2 exon
ATAGTGGTGGCCTACCAGAAAGGTCTTGTATGCTAACTGGAACACCTGAATCTGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028034-Fubp1:NM_057172:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.613 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(38.1=100)
A:
NA
C2:
PF0001324=KH_1=FE(30.2=100)
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:
TAATTGGCAGAGGAGGTGAACA
R:
TGGACAGATTCAGGTGTTCCAG
Band lengths:
130-295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: