HsaINT0066532 @ hg19
Intron Retention
Gene
ENSG00000162613 | FUBP1
Description
far upstream element (FUSE) binding protein 1 [Source:HGNC Symbol;Acc:4004]
Coordinates
chr1:78429747-78430041:-
Coord C1 exon
chr1:78429939-78430041
Coord A exon
chr1:78429848-78429938
Coord C2 exon
chr1:78429747-78429847
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTTGTTTCTTTGTTTTGAAGATG
3' ss Score
8.2
Exon sequences
Seq C1 exon
GTCCCCATTCCAAGATTTGCTGTTGGCATTGTAATAGGAAGAAATGGAGAGATGATCAAAAAAATACAAAATGATGCTGGTGTTCGCATTCAGTTTAAGCCAG
Seq A exon
GTGAGTACATATAATAATCTTGTAAGTGTTGGCAGCAGTGAGTTTTGACATACATTTATTGTTTAATTAATTTTGTTTCTTTGTTTTGAAG
Seq C2 exon
ATGATGGGACAACACCCGAAAGGATAGCACAAATAACAGGACCTCCAGACCGATGTCAACATGCTGCAGAAATTATTACAGACCTTCTTCGAAGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162613-FUBP1:NM_003902:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.343 A=NA C2=0.824
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(93.7=86.8),PF0395812=Secretin_N=PU(13.9=23.5)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=30.5),PF0001324=KH_1=PU(25.8=20.7),PF0395812=Secretin_N=PU(55.7=78.0)
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:
TCCCCATTCCAAGATTTGCTGT
R:
TCTGCAGCATGTTGACATCGG
Band lengths:
172-263
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)