HsaALTD0005848-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000144040 | SFXN5
Description
sideroflexin 5 [Source:HGNC Symbol;Acc:16073]
Coordinates
chr2:73285657-73286287:-
Coord C1 exon
chr2:73286223-73286287
Coord A exon
chr2:73286137-73286222
Coord C2 exon
chr2:73285657-73285725
Length
86 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGC
5' ss Score
7.5
3' ss Seq
TCTCTCATCCTCTTCTTCAGACG
3' ss Score
8.34
Exon sequences
Seq C1 exon
GGAGCTGCCCCTTGTCCTGCACTTCAGCAGCTACAGGGCTGTGGGTGAAGGAGGGCCTGAGGATT
Seq A exon
GTGAGCTCAGTGCTTTTAGGCTTGAGCTGCCCTTGGGGATCCCCCCTGGAGGCAGAGCTGGACCTTGGGGAGGGACCCTGTGGCGG
Seq C2 exon
ACGTCCTTCTATGGCCGCTTCAGGCACTTCTTGGATATCATCGACCCTCGCACACTCTTTGTCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144040-4-15,5-15-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0382012=Mtc=FE(12.6=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CCCCTTGTCCTGCACTTCAG
R:
CTCAGTGACAAAGAGTGTGCGA
Band lengths:
127-213
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)