HsaINT0145134 @ hg19
Intron Retention
Gene
ENSG00000100241 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:10542]
Coordinates
chr22:50902758-50903167:-
Coord C1 exon
chr22:50902963-50903167
Coord A exon
chr22:50902871-50902962
Coord C2 exon
chr22:50902758-50902870
Length
92 bp
Sequences
Splice sites
5' ss Seq
TGAGTGCGT
5' ss Score
1.76
3' ss Seq
TGTGTATTCTGTCCCCGCAGCTG
3' ss Score
11.24
Exon sequences
Seq C1 exon
GAGAACCCGTACCCAGCCGTGGCGATGCACAAGGTACAGAGGCCCGGTGAGAGCAGCCACCTGCGACGGGTGCCCCGACCCTTCCCCCGGCTGGATGAGGGCACCGTGCAGTGGATCGTGGACCAGGCTGCAGCCAAGATGCAGGGTGCACCCCCAGCTGTGAAGGCCGAGAGGAGGACCACCGTGCCCTCAGGGCCCCCCATGA
Seq A exon
GTGCGTAATGAGGGAGGGGAAGGCAGGCCCCGAGCGTGGCCCAGGATGGGCGTGGGGTCAGGGGTCCGAGTGTGTGTATTCTGTCCCCGCAG
Seq C2 exon
CTGCCATACTGGAGCGGTGCAGTGGGCTGCATGTCAACAGCGCCCGGCGGCTGGAGGTTGTGCGCAACTGCATCTCCTACGTGTTTGAGGGGAAAATGCTTGAGGCCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100241-SBF1:NM_002972:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.551 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123353=SBF2=PU(2.7=8.7)
A:
NA
C2:
PF123353=SBF2=FE(16.4=100)
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:
TGCAGTGGATCGTGGACCAG
R:
ACACGTAGGAGATGCAGTTGC
Band lengths:
183-275
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)