Special

BtaEX0020862 @ bosTau6

Exon Skipping

Description
lymphotoxin beta (TNF superfamily, member 3) [Source:HGNC Symbol;Acc:HGNC:6711]
Coordinates
chr23:27491029-27530755:+
Coord C1 exon
chr23:27491029-27491375
Coord A exon
chr23:27491699-27491788
Coord C2 exon
chr23:27530684-27530755
Length
90 bp
Sequences
Splice sites
3' ss Seq
CATGGACTGTACCCTTCCAGGTT
3' ss Score
7.83
5' ss Seq
CAGGTATCG
5' ss Score
9.18
Exon sequences
Seq C1 exon
GAATTTGCACGACGACTAGGGGGAGAAAGAGGCGGAGCGTGCGTAGTGCGTTCGTGGAAAGATGGGAACGGAGAGACGTAGAGACGCCAAGAGTGGAAGGAAACGATGCTAGGCCTATAGTACTATCCGCAAAGGAGATAGAGCTAGAAGACTGGGCGGAAGGGACTAGCTGCCGGAGGGCGGAGCTTACGTAACCAGGGAAGAGCTCCAACTCACGCTTATCTTCGCGAGAGGTGAAAGCATGAGGGGGCGGGGCCTTCATTTATTAAATCACGTCATGCAAATAAGGTAGATTGACAGGCCAATCCAAGAGTCCAGGGGAGTGCATCACGGAACAGAGGCATTCT
Seq A exon
GTTCCTCTGTCCGGTGGAATTTTCCAGGCGATCTTGAACTGAGTTGCCATTTTCTACTCCAGGGGATCCTTCCAATCCATCCCAATCCAG
Seq C2 exon
AGTCCGGGGAGCTGCCCGAGGAGGACTCAGAAACTGATCTCAGCCCTAGGCTCCCAGCTGCCCATCTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020674_MULTIEX1-1/2=C1-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (No Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=NA A=NA C2=0.640
Domain overlap (PFAM):

C1:
NA
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
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:
GAAGAGCTCCAACTCACGCTT
R:
AGTTTCTGAGTCCTCCTCGGG
Band lengths:
183-273
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development