MmuINT0066448 @ mm10
Intron Retention
Gene
ENSMUSG00000028034 | Fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:MGI Symbol;Acc:MGI:1196294]
Coordinates
chr3:152221267-152222244:+
Coord C1 exon
chr3:152221267-152221408
Coord A exon
chr3:152221409-152222083
Coord C2 exon
chr3:152222084-152222244
Length
675 bp
Sequences
Splice sites
5' ss Seq
AAGGCAATG
5' ss Score
1.24
3' ss Seq
TTAGTGTCTTGCGGTTTTAGGAG
3' ss Score
8.4
Exon sequences
Seq C1 exon
GCTGGCAATCCTGGTGGACCGGGACCTGGTGGTCGAGGACGAGGTAGAGGTCAAGGAAACTGGAATATGGGGCCCCCGGGTGGACTCCAGGAGTTTAATTTCATTGTGCCAACTGGGAAAACTGGACTGATCATTGGAAAAG
Seq A exon
GCAATGTATTTTAAACTCTTTGTTTTGATATACTGGATATTTGTAAACAAAAGATGCTATTTATATTTTTTTAGGAAAGGGGTCTTAACATGGCAGCTAAAATAAGAATACTCTTTAATGTATGCTAAAAATGGGATTGTGTCTCAACTGCTTCTAGGGAAAGGGGACCAAAAGTCTGTCAGTTACAAAACTTGATCCTAATTCAAATGGGTTTTGTTGGTGTTTTTTGTTTTGTTTTGCATTTAACTTCTTTGTTACTTACAAAACCTGTTGATTGAAATATTTTTCTGTTCTGACCCATATCAGGGTGTATGTTTAGTAAGGTGTGTATAAAATAGACTTTAGTGTGTTTTGCATTAGTTCTAGATGGAAGAACAGGCTAAATAGAAAATCCTAACATTATTGTCCAGTGGAATGCTACAAAACTGTTTAATGGGCAAAGTAATAGGTGTTTGGGGTTTTTTTTGGTTTTTTTTAAATAGTATTTCTGCCAGACATGGTGACAGACACCTTTAATCCCAGCACTTAGTAGGCAGATGCAGGTGTTTCTCTTGTGAGTTTGAAGCCAGCATGGTCTACAGGGTGAGTTATAGGACAACCAGGGCCACACAGAGACCCTTGTCTTAGGAAAGAGTATTGCTTGCATTCTGTGAACTTAGTGTCTTGCGGTTTTAG
Seq C2 exon
GAGGTGAAACCATAAAAAGCATAAGCCAACAGTCTGGTGCAAGAATAGAACTGCAGAGAAGCCCTCCACCTAATGCAGATCCCAATATGAAGTTATTTACAATTCGGGGCACTCCACAGCAAATAGACTATGCTCGACAACTCATAGAAGAGAAGATTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028034:ENSMUST00000166984:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.872 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(25.8=35.4)
A:
NA
C2:
PF0001324=KH_1=PD(72.7=88.9)
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:
GCTGGCAATCCTGGTGGAC
R:
CCAATCTTCTCTTCTATGAGTTGTCG
Band lengths:
302-977
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