MmuINT0066452 @ mm9
Intron Retention
Gene
ENSMUSG00000028034 | Fubp1
Description
far upstream element (FUSE) binding protein 1 [Source:MGI Symbol;Acc:MGI:1196294]
Coordinates
chr3:151889044-151891209:+
Coord C1 exon
chr3:151889044-151889181
Coord A exon
chr3:151889182-151891134
Coord C2 exon
chr3:151891135-151891209
Length
1953 bp
Sequences
Splice sites
5' ss Seq
ACGGTAATG
5' ss Score
6.53
3' ss Seq
TTTGTTTGTTTTTTAAAAAGGAG
3' ss Score
5.97
Exon sequences
Seq C1 exon
CCAAGGCAGGAGCAGATCCAAACTCGGCAGCTTGGGCTGCTTATTATGCTCACTATTACCAGCAGCAGGCACAACCCCCACCTGCAGCTCCTGCCGGTGCACCAGCTACAACCCAAACGAACGGACAAGGTAACTACG
Seq A exon
GTAATGAAAGATTTTATTTCCTATTTTAAAGCTATAGTTTGTGTTTGGATTCATGTATGAAGTCATAACAAAACTCTCTTTCAGTCCTGAGAATTGTTGGGCCTTGTGCATGATGGTATCATTAGGTTAGATCCTCGGGCCTAAGGTTTTGAAGACTCAGTTGTGACTTTGTGTAAGCAAACTAAGTCAAATAATAGTTGGAAGAATAATGCCTTAAGTAGTGAGACTGTTAACTGTCCTCCCCCCACCCCCATTTACTTCACTACCCTGATTTATGTCTGTTATAATAGTTCTGAAGAGAGCTACTGAAAACTGTACTTAGAGACATAAAATCATATCACCTTTCTACAGACCCTTATTCATTCCAAAATAAATGACCACCATGGACTTTAAAGTCAGTTACTCATCATTGATATACCACTGTTATACACAGCCCTTGCTTAGATCACCAACTGACCCCGTGTTTTCATTAGGTTCATTAAGTCTCATCAAGCTAGAGCACTTTCTTGGTCTTCTTTTATGCCTCTAATAAGAGGATAACTCAACAGTTAGATAGCTGCCAAGCTATAGAGTTACTAACCATGGTTGTTTAAATGGTCTTGCTACTACCAGCCTGGTTTTTGCACTATACTACAACTATGTACTGTAAAGAATTACCTAGGGGCTGGTGAGATGGCTCAGTGGATAAGAGCACCCGACTGCTCTTCCAAAGGTCCGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATACGATCCGATTCTAGTGTGCCTGAAGGCAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTTTAAAAAAAAAAAGAATTACCTAGTATTTTCTGCTACTTTTTACTGGAGTAATGTCACTATCCTATACATTGAACTTCTGCCTCAGCCTTAGTCTGTATTATTAATAAACCTTGCCTTGGTACCCTACTATTACAGCAGCTGTTAACTGTTAGTTTCTGTCATTGTATATTAGTTGCTATTTTACTACAAGGAATAGATTGCCCTTTTTTAACTACTTTCATTATATTGTCCTAGATTTGGGGTGGTTGGGGTTATCTTCAAGGTGGCTCTGGTGCCTCTGACGTTCGTTCTTCAGGTGCTTCCTTAGTACCTGACACAGTAAGATAACTTTGTCTTCTGAGCTCCAATCGGTGATTCATTTCCTTTTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAGGATAGAATTTAGAGATCAGTCTAAGTATACTAATTGCTATCTAAATGTCACTAATTATAATCCTGTCCAAATTAGAACTAAAAAGTATGTTTGGGGCTGGCATTCAGTCAATAGTACTTGTTCCTGCAGAAAACCCAGGTTTGATTGCTAGTACCCACATGGTAACTCACACTGAAACTGATTCCAGGGGACCCAGTGCCCTCTTCTGATCTGTGGAGCACCAGATACCCAGGGTGCACAGATTATACATGTGGACAAAATGCTCACACATAAAATTAAACAGTATCTTTAAAAACATGCAGGACAACACGTGTCTACTAAAAATCACATGATTATATACTACTTTTTCATTTAATCTTTAAAATTAGTGCTTCAAAGCTATTTGTGGCTTTTCTAAAAATGTGTGCAGGAGATATCAAGGGATGAACCATGCTTGAACTGTCCTTAAAAATGGATAGAAACCATGTTCTATATTTCTTTTGTGTGCATTTACTTACTATTCCCAGTTTCTGTGTCCACCCCTTCTATACCCACTTGTCATGTATTCCCAACAAACACTTGCACAACTCCGTGGTGTAGACAGTGCTAATTACAGTACTGATGGTGTAGAAGCAAAAGTGCATAACAACCTTCAGAAACTTAAATCTTGTTTTGTTTGTTTGTTTTTTAAAAAG
Seq C2 exon
GAGATCAGCAGGCTCCAGCTCCAGCTGGACAGGTTGATTATACAAAGGCTTGGGAAGAATACTACAAGAAAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028034-Fubp1:NM_057172:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.721 A=NA C2=0.577
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF090055=DUF1897=PU(75.9=84.6)
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:
CCAAGGCAGGAGCAGATC
R:
TCTTGTAGTATTCTTCCCAAGCCT
Band lengths:
207-2160
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: