HsaEX0036881 @ hg19
Exon Skipping
Gene
ENSG00000227507 | LTB
Description
lymphotoxin beta (TNF superfamily, member 3) [Source:HGNC Symbol;Acc:6711]
Coordinates
chr6:31549336-31550202:-
Coord C1 exon
chr6:31550033-31550202
Coord A exon
chr6:31549591-31549636
Coord C2 exon
chr6:31549336-31549407
Length
46 bp
Sequences
Splice sites
3' ss Seq
CTGTGACCCCACCCAACCAGGTA
3' ss Score
5.68
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
Exon sequences
Seq C1 exon
CAGTCTCAATGGGGGCACTGGGGCTGGAGGGCAGGGGTGGGAGGCTCCAGGGGAGGGGTTCCCTCCTGCTAGCTGTGGCAGGAGCCACTTCTCTGGTGACCTTGTTGCTGGCGGTGCCTATCACTGTCCTGGCTGTGCTGGCCTTAGTGCCCCAGGATCAGGGAGGACTG
Seq A exon
GTAACGGAGACGGCCGACCCCGGGGCACAGGCCCAGCAAGGACTGG
Seq C2 exon
GGTTTCAGAAGCTGCCAGAGGAGGAGCCAGAAACAGATCTCAGCCCCGGGCTCCCAGCTGCCCACCTCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000227507_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.750 C2=0.646
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
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:
AGCCACTTCTCTGGTGACCTT
R:
GGGCTGAGATCTGTTTCTGGC
Band lengths:
134-180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)