HsaALTA0008374-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148248 | SURF4
Description
surfeit 4 [Source:HGNC Symbol;Acc:11476]
Coordinates
chr9:136234135-136242970:-
Coord C1 exon
chr9:136242793-136242970
Coord A exon
chr9:136234322-136234419
Coord C2 exon
chr9:136234135-136234321
Length
98 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
AGAGCTCTTGCCTTCCACAGCGT
3' ss Score
7
Exon sequences
Seq C1 exon
GGAGCCGCAGCCGACGCGGAGCGAGGCCGGCCGCCGGGCACTTCCTGTGGAGGCCGCAGCGGGTGCGGGCGCCGACGGGCGAGAGCCAGCGAGCGAGCGAGCGAGCCGAGCCGAGCCTCCCGCCGTCGCCATGGGCCAGAACGACCTGATGGGCACGGCCGAGGACTTCGCCGACCAG
Seq A exon
CGTCTGTTCCTCACACACCCCGCCCAAGGACGTGCCTGGCAGCGGCCTGGTGCTCCCCGCCGCAGCCACCTCACCCTTGGGTTTCTGTGGCCCTGCAG
Seq C2 exon
TTCCTCCGTGTCACAAAGCAGTACCTGCCCCACGTGGCGCGCCTCTGTCTGATCAGCACCTTCCTGGAGGACGGCATCCGTATGTGGTTCCAGTGGAGCGAGCAGCGCGACTACATCGACACCACCTGGAACTGCGGCTACCTGCTGGCCTCGTCCTTCGTCTTCCTCAACTTGCTGGGACAGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148248-0-3,0-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0207710=SURF4=PU(10.0=75.0)
A:
NA
C2:
PF0207710=SURF4=FE(34.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
CAGAACGACCTGATGGGCAC
R:
CAGTTCCAGGTGGTGTCGATG
Band lengths:
176-274
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)