HsaINT0145130 @ hg19
Intron Retention
Gene
ENSG00000100241 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:10542]
Coordinates
chr22:50903644-50904269:-
Coord C1 exon
chr22:50904192-50904269
Coord A exon
chr22:50903758-50904191
Coord C2 exon
chr22:50903644-50903757
Length
434 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GCACTCAGCTCTTCTCCCAGGAC
3' ss Score
4.89
Exon sequences
Seq C1 exon
GTCCTGGACCCGGAGCTGGAGTTGGCTGACCTCGCCTTCCCTCCGCCCACGACATCCACCTCCTCCCTGAAGATGCAG
Seq A exon
GTGGGGGTCGTTGCTGCTCCTGCATGGGGACCCCAGGCACTTAGGCTGCCCCCACTCAGGTCTGCTGCCACTGACACACAGGGCCCCACCCCCAGGCTGGCCCCGGCTCCAGTAGCAGAAGCAGGAGCCTGGGAGCAAAGCAGCTGCCAGCAGTTAGGAGTGGTGGTCGTGAGTGGTGCAGGCGAGGCGGCAGGGGCCCAGCAAGGGGCTGGAACTTGGCGTCTGATCACAGGAGCCCTTGAGGGTGCTGAGCCAGGAGTGCCTTGTCCAGACAGTTTCAGAGGAGCTGGTGGCCCTGAGTGCAGAATGGTGGGAGGGGCAGAAGGATGGGAGCGGGGCAGCTTGGGGTGGGTTGGGGTGTGGAGAAGCTCCTGGGCAGCCTGGGGTGGGGATTGGCAGGACTGGCTCTCACCTGCACTCAGCTCTTCTCCCAG
Seq C2 exon
GACAAGGAGCTGCGCGCGGTCTTCCTGCGGCTGTTCGCTCAGCTGCTGCAGGGCTATCGCTGGTGCCTGCACGTCGTGCGCATCCACCCGGAGCCTGTCATCCGCTTCCATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100241-SBF1:NM_002972:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=PU(0.1=0.0)
A:
NA
C2:
PF0345514=dDENN=FE(52.9=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:
GTCCTGGACCCGGAGCTG
R:
TATGGAAGCGGATGACAGGCT
Band lengths:
190-624
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)