MmuINT0066445 @ mm10
Intron Retention
Gene
ENSMUSG00000028034 | Fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:MGI Symbol;Acc:MGI:1196294]
Coordinates
chr3:152220136-152220567:+
Coord C1 exon
chr3:152220136-152220237
Coord A exon
chr3:152220238-152220464
Coord C2 exon
chr3:152220465-152220567
Length
227 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
AAAATATACTTTTACTTAAGGTC
3' ss Score
4.45
Exon sequences
Seq C1 exon
CAAGCCAAGGAAATGGTATTAGAGTTAATTCGTGATCAAGGTGGTTTCAGAGAAGTGCGGAATGAGTATGGCTCAAGAATAGGAGGCAATGAAGGGATAGAT
Seq A exon
GTAAGTAAGAATTCTGAGTCAGCAGTGGTTGTATCCTAATCCATGGGCACTAGTGTTTTCCTGCTTTGAATTAAATGGACTTGGCTTAACATCATGTCCCTTTTCTTGTTTTCTTCCTTGGGGTTTTTTTATCTTGTTATTTTTATGATCATTTAGTATATTTACTTTTATGATTAAGTGGGGATGAGTTTTTGAGAAATGTCTTTTAAAATATACTTTTACTTAAG
Seq C2 exon
GTCCCAATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAAATGATTAAAAAAATACAAAATGATGCTGGTGTTCGAATTCAGTTTAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028034:ENSMUST00000166984:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.278 A=NA C2=0.338
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=14.7),PF0001324=KH_1=PU(3.2=5.9)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=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:
CAAGCCAAGGAAATGGTATTAGAGT
R:
TGGCTTAAACTGAATTCGAACACC
Band lengths:
204-431
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