HsaINT0066545 @ hg19
Intron Retention
Gene
ENSG00000162613 | FUBP1
Description
far upstream element (FUSE) binding protein 1 [Source:HGNC Symbol;Acc:4004]
Coordinates
chr1:78432378-78432639:-
Coord C1 exon
chr1:78432568-78432639
Coord A exon
chr1:78432436-78432567
Coord C2 exon
chr1:78432378-78432435
Length
132 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
CTGTTTGTTTTAAATTGTAGACA
3' ss Score
8.87
Exon sequences
Seq C1 exon
TAATTGGCAGAGGAGGTGAACAGATCTCACGCATACAACAGGAATCTGGATGCAAAATACAGATAGCTCCTG
Seq A exon
GTAATGTTACATTCTCATGGTATTTTCAGTGTGACTAGAAAACTAGCTTTTTTTTTTTTTTAAGCCTTCTAGTAACAATAATGCTACTTTTAATCTTTTGACCTGAAGTTATCTGTTTGTTTTAAATTGTAG
Seq C2 exon
ACAGTGGTGGCCTTCCAGAAAGGTCCTGTATGTTAACTGGAACACCTGAATCTGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162613-FUBP1:NM_003902:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.582 A=NA C2=0.783
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(38.1=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=33.8),PF0001324=KH_1=PU(38.5=33.8)
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:
TAATTGGCAGAGGAGGTGAACA
R:
TGGACAGATTCAGGTGTTCCAG
Band lengths:
130-262
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)