MmuINT0066479 @ mm9
Intron Retention
Gene
ENSMUSG00000026843 | Fubp3
Description
far upstream element (FUSE) binding protein 3 [Source:MGI Symbol;Acc:MGI:2443699]
Coordinates
chr2:31458731-31460236:+
Coord C1 exon
chr2:31458731-31458835
Coord A exon
chr2:31458836-31460133
Coord C2 exon
chr2:31460134-31460236
Length
1298 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GGTGATGTCTCTGTGTCTAGGTG
3' ss Score
8.2
Exon sequences
Seq C1 exon
CAAGCAAGAGAAATGGTTCTAGAGATTATCCGAGAGAAAGATCAGGCTGACTTCCGGGGTGTGCGCAGCGATTTCACCTCCCGAGCAGGCGGAGGTAGTATAGAG
Seq A exon
GTAAGCTGGACTCACGGGTCAGTGGGCAAACAAGGTTGAGCTCAGAGCCAGCCTGCTTTACAGAACAAACCCCAAGCCACTTAGGGCTACATGTTGGTATGACCCTGTCTCAAAAACACAAGAGTGGGACTAAAGTCACTGGTCACAGTGCTCAGGGATGTGAAGGAGGGACCAAGCATGGAGAGCCAGCTGCATTATGGGGCAGGCCACCCCTTTGCTTTTCAGGTTTGCTTTAAAAATTTACTTGATCTAGAGGTAGGGACCAAAATCCAAGTTTTCTCAGTGATAATATATGTTGTAGTTGTATTAAATCTATAATCTTGCCTTATTGATGAGATGAAATGGTATCAAAATCTGTCTTGCAATTTTCATTTATGCCACAGTATACAAACATCACACTCAGTGCAGTGAGCCAGATTCACAGTGGCCACTCTAAATGAGGCAGAGTAGCAGAGGCAATTGAAGCAAGTGGTATTACTGTTCGGTGGTACAGTGTCTGTGGTGACCAATAGGTACTGAGTCTAGCTGGTGCTGCTGGTGCCTCCACAGAAACATGACAATGGCAGATGCTGTGGCTTGTGCATTTTACCACAGTTTTACAGAGAGAGACTAAAAGGTTGTGGAAGGCCTGGCGGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGAGGATTTCTGAGTTCGAGGCCAGCCTGGTCCACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAAAAGAAAAGAAAAGAAAAGGCTGTGGAAGATTACAGGGATGGCCAATGTGATATATTCGTATGCGTTTCACAGAACTTGGGAGATAAAAATGATCATTTTACATCTTTGCTCTGTAGACATTCCCTTACTTTTATAACCCTTTTTAGTCCAATTTTATACTTCTTCACACAGTTGTGAGCAATATAATTATCAGTCACGGAATTACTCTAAAGAGAAGCCGGCCTTATTATTTTAATTATGGAATTACACTATAATAAAAATGAAGTACTTATTTTTAAATCTTTCCTTTTAAAAGAAAAGGCCAAGAACTCAGCAGTTAGGAGCACTGGCTGCTTTTGCCAAAAGAACTGGGTTCAGATCTCAGCACCCACATGGCATCTCACAGCCACCTGTAATTCAAGCCCTAGGGCATCCACTGTCTCTGTAGGCACCTGTATTCGTGTGCCACATACACACAGTTAAAATGCTTTAGATCTTTACCAAGCCACTTGTGCGGAAGCTCTGACAGGTGATGTCTCTGTGTCTAG
Seq C2 exon
GTGTCTGTGCCTAGGTTTGTTGTTGGGATTGTCATAGGAAGGAACGGAGAAATGATTAAGAAGATCCAGAACGACGCTGGTGTGAGGATCCAATTCAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026843-Fubp3:NM_001033389:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.182
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=14.3),PF0001324=KH_1=PU(3.2=5.7)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=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:
CAAGCAAGAGAAATGGTTCTAGAGA
R:
GGTTTGAATTGGATCCTCACACC
Band lengths:
206-1504
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: