HsaINT0066544 @ hg19
Intron Retention
Gene
ENSG00000162613 | FUBP1
Description
far upstream element (FUSE) binding protein 1 [Source:HGNC Symbol;Acc:4004]
Coordinates
chr1:78432568-78432785:-
Coord C1 exon
chr1:78432733-78432785
Coord A exon
chr1:78432640-78432732
Coord C2 exon
chr1:78432568-78432639
Length
93 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ATTTTTTTTTTTCTAACTAGTAA
3' ss Score
7.5
Exon sequences
Seq C1 exon
CAGATCTGTAATGACAGAAGAATACAAAGTTCCAGATGGAATGGTTGGATTCA
Seq A exon
GTAAGTAACTTGATTTTTAAAGTTTTGAAAACATGATCAAAACATACTTTAGAATCTTTCAACCAAAAAAAAAATTTTTTTTTTTCTAACTAG
Seq C2 exon
TAATTGGCAGAGGAGGTGAACAGATCTCACGCATACAACAGGAATCTGGATGCAAAATACAGATAGCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162613-FUBP1:NM_003902:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.582
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(20.6=72.2)
A:
NA
C2:
PF0001324=KH_1=FE(38.1=100)
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:
ACAGAAGAATACAAAGTTCCAGATGG
R:
AGGAGCTATCTGTATTTTGCATCCA
Band lengths:
111-204
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)