HsaALTA0008868-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:11976]
Coordinates
chr6:32039767-32041729:-
Coord C1 exon
chr6:32041424-32041729
Coord A exon
chr6:32040061-32040075
Coord C2 exon
chr6:32039767-32040060
Length
15 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TTTGTCTTCCCAAATCCCAGCTC
3' ss Score
5.15
Exon sequences
Seq C1 exon
CCCCACAACAAGAAGAGACCCCTCCAGCCACTGAGTCCCCGCTGGAGCCACGCCTAGGAGAGCTGACAGTGACAGATGTGACCCCCAACTCTGTGGGCCTCTCCTGGACAGTCCCCGAGGGCCAGTTTGACTCCTTCATAGTCCAGTACAAGGACAAGGACGGGCAGCCCCAGGTGGTGCCGGTGGCGGCAGACCAGCGAGAGGTCACAGTCTACAACCTGGAGCCTGAGAGAAAATATAAGATGAACATGTATGGACTACATGATGGGCAACGCATGGGCCCCCTGTCTGTGGTCATCGTGACGG
Seq A exon
CTCCCCTCCCACCAG
Seq C2 exon
CCCCAGCCACAGAGGCCTCCAAGCCTCCCCTGGAGCCACGCCTAGGGGAGCTGACAGTGACGGATATAACCCCTGACTCTGTGGGCCTCTCATGGACAGTCCCTGAGGGTGAATTCGACTCCTTTGTGGTTCAGTACAAGGACAGGGACGGGCAGCCCCAGGTGGTGCCCGTGGCTGCAGATCAGCGGGAGGTCACTATCCCTGACCTGGAACCCTCCCGCAAGTACAAGTTCCTGCTCTTTGGGATCCAGGATGGGAAACGACGCAGCCCAGTCTCTGTGGAGGCAAAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477-15-19,15-18-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.531 A=NA C2=0.485
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=78.6)
A:
NA
C2:
PF0004116=fn3=WD(100=76.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GACTACATGATGGGCAACGCA
R:
TATCCGTCACTGTCAGCTCCC
Band lengths:
117-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)