MmuINT0066446 @ mm10
Intron Retention
Gene
ENSMUSG00000028034 | Fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:MGI Symbol;Acc:MGI:1196294]
Coordinates
chr3:152220465-152220786:+
Coord C1 exon
chr3:152220465-152220567
Coord A exon
chr3:152220568-152220685
Coord C2 exon
chr3:152220686-152220786
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGTTGTTGTTATTGTTTTAGATG
3' ss Score
9.49
Exon sequences
Seq C1 exon
GTCCCAATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAAATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAG
Seq A exon
GTAAGTTTAAGGTATATTTAATGTTCTAAGAATTGATAGCTTTTAATCTTGACATTTATAATTGGTTTGTCACAACTTACTCTGTTTTTTTTTGTTGTTGTTGTTGTTATTGTTTTAG
Seq C2 exon
ATGATGGAACAACACCTGATAGGATAGCACAGATAACAGGACCTCCAGACAGGTGTCAGCACGCTGCAGAAATAATCACAGACCTTCTACGAAGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028034:ENSMUST00000166984:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.338 A=NA C2=0.824
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
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:
GTCCCAATTCCAAGATTTGCTGT
R:
CGTAGAAGGTCTGTGATTATTTCTGC
Band lengths:
194-312
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