HsaALTD0006696-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:11976]
Coordinates
chr6:32011214-32011669:-
Coord C1 exon
chr6:32011617-32011669
Coord A exon
chr6:32011526-32011616
Coord C2 exon
chr6:32011214-32011333
Length
91 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
AGCCCCTCCCCTTCCCCCAGTTC
3' ss Score
8.9
Exon sequences
Seq C1 exon
GGGAGCCTCAGAGTGTGCAGGTGGATGGCCAGGCCCGGACCCAGAAACTCCAG
Seq A exon
GGGCTGATCCCAGGCGCTCGCTATGAGGTGACCGTGGTCTCGGTCCGAGGCTTTGAGGAGAGTGAGCCTCTCACAGGCTTCCTCACCACGG
Seq C2 exon
TTCCTGACGGTCCCACACAGTTGCGTGCACTGAACTTGACCGAGGGATTCGCCGTGCTGCACTGGAAGCCCCCCCAGAATCCTGTGGACACCTATGACGTCCAGGTCACAGCCCCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477-44-57,45-57-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.494 A=NA C2=0.442
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=81.6)
A:
NA
C2:
PF0004116=fn3=PU(46.9=92.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAGAGTGTGCAGGTGGAT
R:
CCCAGGGGCTGTGACCTG
Band lengths:
167-258
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)