HsaINT0066558 @ hg19
Intron Retention
Gene
ENSG00000107164 | FUBP3
Description
far upstream element (FUSE) binding protein 3 [Source:HGNC Symbol;Acc:4005]
Coordinates
chr9:133511386-133513739:+
Coord C1 exon
chr9:133511386-133511513
Coord A exon
chr9:133511514-133512400
Coord C2 exon
chr9:133512401-133513739
Length
887 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGT
5' ss Score
6.84
3' ss Seq
CTCTTCCCTTCCGCCCACAGGAG
3' ss Score
12.52
Exon sequences
Seq C1 exon
GTCACGCCGCCAGCGCTGCTCCTCAGGCCAGCTCCCCACCGGACTACACAATGGCCTGGGCAGAATATTACAGACAGCAGGTCGCTTTCTACGGACAGACGTTAGGGCAGGCGCAGGCCCACAGCCAG
Seq A exon
GTCTGTAGCTGATCACCAGCACCGCTGCCACTCCCTAGCCCCGAGCCCCTGCTCCCAAGCCTTCTGTGTTTCCTGACCCCAGGATGAGAGCGCTGGGCTAGGAGGAACCTCTGGGCGCCATAGCTCCTCAGCGAGGCTGCTTCTGCTGAGAGCCCGGCTCCAGCCCCTCTGTCCCTCCTCGCTCTGGAGAAAAAGAGTTTAGGCCAAGTGGGAGGATTGGGGGCGCAGCCCCTACAAGGAAGTGCCTGAACTTTCCTCAAGTCCAGGCCCCAGACCTCAGGGCTGATTAGTAGTCTCTCTCTTCCTCTAAGCCTCAGTTTCCCTAACCGTAAAGGAGCAAGTGCAGAGGGTGCGCTCCGGCGACTGCTCTCGAGGAGGGTGGAGTGGCCAGGCCGTCAGCCATGCCCGGGCAGCAGCAGGAAGCAGTGAGAGGGCAGGGGGGCAGAGCCCAGCTTTCCTCTCCTGTGCACAACCTAGAGGGTTCTGTTCAGAGGCCAAAAACGGATTTCTTATTAAAGAAGGGAAGACGTCCAAATGTTCCCACAGGGCGCATTTCCCACCTGATGCCAGTCAGGTCCTCATGGATAACATTTCAGTTACCTCCTGGCCCTGGACTCAGCTGGTTGGGCCTCTCACTGCCAAATTGGCCGTCTGGGTCTGGTCCTGGGGAAACAGGTGTCAGGGCTGGTGGTGATGGAGGAGAAGCGTGGCTCCCACTGTCCGCTCTTCCCTGCCCCAAGTCCCTAGTGGAGAGAGAAGCCCAAGACCTCTTCAGCAGAGGTTTTGTCTGGCCCAGCTCCCGTGACGCGAGACCTGGGGGAGGTCACTGGCACACAGACCTGAGAACCTGCCATCACAGACTAATTCCTCTTCCCTTCCGCCCACAG
Seq C2 exon
GAGCAGTAGGACAGCGTCCTCGTGGCCAACTCTCCCCTCAAAATCATTGTCAAAGAAAACCTATTTGTAACAGAGGTTTTTACATTTGCAAACCTTTTGATGAAGAACTGTTGTTTTGTTCTGTGAAACACTATATTTAGATTAACGGAATTTTTCTAAAAATCAGGAAAATTAGTTACTAAAAATTGCTGATCATTTTTGTTTCATTATTTTTGTTATTTCAAATGTATAAGCTCTGGGATTCTTTTTGGAGCAATACCTACAAAGTCAGGCACCAGAATGTGCCTCAGAGCTGTGACATTTCAACATGATGGTTTTGGTTTGGTTTGGTTTTGTGTCCTTTTTATTTGCAGTTTTTTCTGTTGCAACAGAAAGTGGCTTGGAAGTCTTAGGTGGTATGTAACAAATTCTTTTTAAAAATTTTAAAGCAGTATTTAAGTATTCTTAAATGTGTAAATTCATTTAATGTTTTACTTCTAATTTCTTGTATCTTGGCTGTCTGGTTTTATTGCATTTTTAAAAAAACTGAACTATTATGTATTGTAATGAATGATGTGAATTCTGAACTGAGACAGATAATTGTATTGCTGTCCAACAGGGGTTGGGAGGGGCATTTTGTAGGGTTTGTATAATTTCTAGAGTTCGAAAGGGGTAATATAAAAATGTGCTCGTGTGTTTAGCCTACGTTTTTCTCATGCCTCCATTACCAGTTGCAATTGTGTATCTAAGACCTCCAAGCTTGTTTTTAAAACAAAACAAAAAACCTTTCTCTATTATCTCAGAAATATAAATACTGTTATTTTTAATATTAAGAAATTCAATATAACTTTTAACACACACTGTGGAACATTAAACCGTATAAAAATGTAGTTATAACTATTTTTAATTCCAAGGTGTTGTTTGCTTTTTTCTTTTAAATATTTTCTTAATATTTTGTCAGATTAACTAGATGAATAAATAAATCTAGTATTAACCGCATTATGAATTAAATAATTTTGATTTAATGAAAGGGATAATATGATTTCCAGTGTTTACTGTAGTGTATCTTGTACAGATAACATGTATTTTTAAAGGAAAAAAAACGGAATTGAAGCTATTTTTTCTTGCATTTCTAATTGACCTGAGGGACATTCCGTTTGAAATGTACTGAAGTTACAGTTTCTGGTTTTTTCTCCTTATTTTTCTTATAATGCTTGAAATGTCTAACTATTAAAAAAGACAATTGGAAAATGTTATGCATGGGGTTTTTAAGAAAACAAAGTGTTCTTTTTATTTGACTGACAATTCATTTTACACTCTATATAATAAAATCTCCACAAGGCATCTTGTGGGCAAAGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107164-FUBP3:NM_003934:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.472 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=WD(100=74.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGCTTTCTACGGACAGACG
R:
CAGCTCTGAGGCACATTCTGG
Band lengths:
343-1230
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)