HsaALTD0000671-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:23059]
Coordinates
chr1:156612035-156615937:+
Coord C1 exon
chr1:156612035-156612063
Coord A exon
chr1:156612064-156612067
Coord C2 exon
chr1:156615839-156615937
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TTCTCATGTCCCTCTGTCAGCCT
3' ss Score
5.89
Exon sequences
Seq C1 exon
GCAGTGCCGCGACCCAACCCCAGCCCTGG
Seq A exon
GTAG
Seq C2 exon
CCTGCAGCATGGCCCAGCTGTTCCTGCCCCTGCTGGCAGCCCTGGTCCTGGCCCAGGCTCCTGCAGCTTTAGCAGATGTTCTGGAAGGAGACAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132692-1-6,2-6-2/2
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:
PF0768612=V-set=PU(10.7=48.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
GACCCAACCCCAGCCCTG
R:
CCAGAACATCTGCTAAAGCTGC
Band lengths:
103-107
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)