HsaALTD0006318-2/3 @ hg19
Alternative 5'ss
Gene
ENSG00000148291 | SURF2
Description
surfeit 2 [Source:HGNC Symbol;Acc:11475]
Coordinates
chr9:136223924-136224690:+
Coord C1 exon
chr9:136223924-136223944
Coord A exon
chr9:136223945-136224058
Coord C2 exon
chr9:136224587-136224690
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TTGGTCTCTCTGCTCTGTAGGCA
3' ss Score
8.4
Exon sequences
Seq C1 exon
CGTGCCCAGCACCAAGAACCC
Seq A exon
GTAGGTGGTCCGCGGCGGCGCGGGGAGGCCCAGGGCAATTAGGACAGCCCCTCCGCTGGACTCCGCCAGTGCTGCAGCCCCTACTCTTTCAGAGTTGGGAGCCCTGGGACCCAG
Seq C2 exon
GCACCAGTTGTTCTGCAAACTCACCCTGCGGCACATCAACAAGTGCCCAGAACACGTGCTGAGGCACACCCAGGGCCGGCGGTACCAGCGAGCTCTGTGTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148291-1-2,2-2,3-2-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(20.2=100)
A:
NA
C2:
PF054776=SURF2=FE(13.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAGCACCAAGAACCC
R:
ATTTACACAGAGCTCGCTGGT
Band lengths:
122-236
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)