BtaEX6098517 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000020674 | LTB
Description
lymphotoxin beta (TNF superfamily, member 3) [Source:HGNC Symbol;Acc:HGNC:6711]
Coordinates
chr23:27530436-27531864:+
Coord C1 exon
chr23:27530436-27530487
Coord A exon
chr23:27530684-27530755
Coord C2 exon
chr23:27531239-27531864
Length
72 bp
Sequences
Splice sites
3' ss Seq
ACTCTTCCTACCTCTTCCAGAGT
3' ss Score
9.14
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
Exon sequences
Seq C1 exon
GTAACAGGGACGGCTGACCCAGGCACCCAGGCACCTGCCCATCAGCGATTTG
Seq A exon
AGTCCGGGGAGCTGCCCGAGGAGGACTCAGAAACTGATCTCAGCCCTAGGCTCCCAGCTGCCCATCTCATTG
Seq C2 exon
GCGCTTGGACCACCGGGCAGGGGCTAGGCTGGGAGGCGAAGAAAGAAGAGGCGTTTCTGAGCAGCGGGACGCAGTTCTCGGGTGCGGAAGGGCTGGCCCTCCCGCAGGACGGCCTCTATTACCTCTACTGTCACATCGGCTACCGGGGCCGGGCGCCCCCTCCCGCCGTGGAGCCCCTGGACGGCTCGGTCACGCTGCTCAGCCGGCTGTACCGGGCGGGGGGCGCCTATGGGTCGGGGACCCCCGAGCTGCTGCTGGAGGGCGCGGAGACCGTGACACCTGTCTCGGACCCCGCCAGGAGGCACGACTATGGGCCCCTCTGGTACACGAGCGTGGGGTTCGGTGGCCTGGTGCAGCTCCGGAGGGGCGAGAGGGTGTACGTCAATATCAGTCACCCCGACATGGTGGACTACAGGAGAGGAAAGACCTTCTTCGGGGCGGTGATGGTGGGGTGAGGGCTAGCTGCATCCCTAAGAACAGCTACTGCCTGATGAGAGTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020674-'2-5,'2-4,3-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.640 C2=0.060
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
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:
GTAACAGGGACGGCTGACC
R:
AGGTAATAGAGGCCGTCCTGC
Band lengths:
176-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]