HsaINT0145150 @ hg19
Intron Retention
Gene
ENSG00000100241 | SBF1
Description
SET binding factor 1 [Source:HGNC Symbol;Acc:10542]
Coordinates
chr22:50894921-50895540:-
Coord C1 exon
chr22:50895463-50895540
Coord A exon
chr22:50895103-50895462
Coord C2 exon
chr22:50894921-50895102
Length
360 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCG
5' ss Score
8.5
3' ss Seq
ACCTGGCATCTCCTTCACAGGTA
3' ss Score
9.53
Exon sequences
Seq C1 exon
TTCCCAGCCCCAGAGCCAGGGTCACCACGCTGTCCAACCCCATGGCGGCCTCGGCCTCCAGACGGACCGCACCCCGAG
Seq A exon
GTACCGTACCGAGCCTGCGCAGGCCCGCCTCCCCTTACTTGGTGCTGGCGGCCTCTAGTGTGCACTGAGTTATTGCGGGCACTAATGTCTCCCTCCACACCTGACACTAACGACCCGTCTCCCGAGCCCCAGTCCTTACCTCCCTGACCCGTGAGTCCTGCCCTAGAAACTAACACTGGCTGCCACCCCACGTCTCAGAATCTGTGTGTTCCAGCCCTCCTCTCGCACGGCCCTGCTGGGGTCCTGCCAACCACCCCTGCCCTGGGAGCTCAGCCCCCTCCCTGGAGGCCGGGCCCAGCCAGCCCCAGGTAAGTGGTGCCCTGGCCCCCTTTGGGTGCTTACCTGGCATCTCCTTCACAG
Seq C2 exon
GTAAGTGGGGCAGTGTCCGGACCAGTGGACGCAGCAGTGGCCTTGGCACCGATGTGGGCTCCCGGCTAGCTGGCAGAGACGCGCTGGCCCCACCCCAGGCCAACGGGGGCCCTCCCGACCCGGGCTTCCTGCGTCCGCAGCGAGCAGCCCTCTATATCCTTGGGGACAAAGCCCAGCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100241-SBF1:NM_002972:29
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.672
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=FE(5.6=100)
A:
NA
C2:
PF066029=Myotub-related=FE(13.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAGCCAGGGTCACCA
R:
CTTGAGCTGGGCTTTGTCCC
Band lengths:
251-611
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)