HsaEX6046262 @ hg19
Exon Skipping
Gene
ENSG00000227507 | LTB
Description
lymphotoxin beta (TNF superfamily, member 3) [Source:HGNC Symbol;Acc:6711]
Coordinates
chr6:31548302-31549636:-
Coord C1 exon
chr6:31549591-31549636
Coord A exon
chr6:31549336-31549407
Coord C2 exon
chr6:31548302-31548940
Length
72 bp
Sequences
Splice sites
3' ss Seq
GGACTCTTTGCCCCTTCCAGGGT
3' ss Score
7.75
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
Exon sequences
Seq C1 exon
GTAACGGAGACGGCCGACCCCGGGGCACAGGCCCAGCAAGGACTGG
Seq A exon
GGTTTCAGAAGCTGCCAGAGGAGGAGCCAGAAACAGATCTCAGCCCCGGGCTCCCAGCTGCCCACCTCATAG
Seq C2 exon
GCGCTCCGCTGAAGGGGCAGGGGCTAGGCTGGGAGACGACGAAGGAACAGGCGTTTCTGACGAGCGGGACGCAGTTCTCGGACGCCGAGGGGCTGGCGCTCCCGCAGGACGGCCTCTATTACCTCTACTGTCTCGTCGGCTACCGGGGCCGGGCGCCCCCTGGCGGCGGGGACCCCCAGGGCCGCTCGGTCACGCTGCGCAGCTCTCTGTACCGGGCGGGGGGCGCCTACGGGCCGGGCACTCCCGAGCTGCTGCTCGAGGGCGCCGAGACGGTGACTCCAGTGCTGGACCCGGCCAGGAGACAAGGGTACGGGCCTCTCTGGTACACGAGCGTGGGGTTCGGCGGCCTGGTGCAGCTCCGGAGGGGCGAGAGGGTGTACGTCAACATCAGTCACCCCGATATGGTGGACTTCGCGAGAGGGAAGACCTTCTTTGGGGCCGTGATGGTGGGGTGAGGGAATATGAGTGCGTGGTGCGAGTGCGTGAATATTGGGGGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000227507-'2-5,'2-4,3-5=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=0.646 C2=0.119
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0022913=TNF=WD(100=93.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
CACAGGCCCAGCAAGGAC
R:
GCCGACGAGACAGTAGAGGTA
Band lengths:
161-233
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)