HsaINT0145171 @ hg19
Intron Retention
Gene
ENSG00000133812 | SBF2
Description
SET binding factor 2 [Source:HGNC Symbol;Acc:2135]
Coordinates
chr11:10013962-10014650:-
Coord C1 exon
chr11:10014537-10014650
Coord A exon
chr11:10014091-10014536
Coord C2 exon
chr11:10013962-10014090
Length
446 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CACATTTTCTTTTTTCACAGACA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GATAAAGAGGTGCGAGCCGTTTTCCTTAGATTATTTGCACAACTCTTCCAAGGATATAGATCCTGCCTGCAACTTATAAGAATTCATGCAGAGCCAGTAATACATTTCCACAAG
Seq A exon
GTAAGATAGAGTACTATATTGTATCTGTCCAAAAAATATATTCTAATTTAATAAAACTACTTGGTTTTTTTTCCGAGCCATTTATTTTGACCTTGATTTATCAAATGTGATTATTTAAAATCTCTGTGTGGTTAGATATCAGTTCTTAATAATAATATGGAACTCATAATATCTTAGAATATGTTAACTTTAAATCAATTTTTCTTTTAAAATTGAATGTTAATTTCTGATTTCTTCTCCTGACATGTAGACAGATTCATTTTTATTCTTTTCAATATATGTAGTATTTCAGAATAACTCTCTTTGAGAGAAATATATTTTATGACAGCATATATTTATACATGAAGGGATTTATATAGGCTTTGATCTTTTTATTGTATTTCTGTTTTGACCATTTGTCCGTTACCAAGTGATAAATTATTATTTCACATTTTCTTTTTTCACAG
Seq C2 exon
ACAGCATTCTTGGGGCAGCGTGGTTTGGTCGAGAATGATTTCCTCACTAAAGTACTCAGTGGAATGGCATTTGCAGGTTTTGTTTCAGAAAGAGGTCCTCCTTATAGATCTTGTGATCTCTTTGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133812-SBF2:NM_030962:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0345514=dDENN=PU(45.8=97.4)
A:
NA
C2:
PF0345514=dDENN=PD(42.9=69.8)
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:
GATAAAGAGGTGCGAGCCGTT
R:
GATCACAAGATCTATAAGGAGGACCT
Band lengths:
232-678
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)