BtaEX0020181 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000003992 | LHX4
Description
Bos taurus LIM homeobox 4 (LHX4), mRNA. [Source:RefSeq mRNA;Acc:NM_001192785]
Coordinates
chr16:62875720-62887331:+
Coord C1 exon
chr16:62875720-62875820
Coord A exon
chr16:62886261-62886347
Coord C2 exon
chr16:62887160-62887331
Length
87 bp
Sequences
Splice sites
3' ss Seq
GAATTCTGGTCTCTCCTTAGTGC
3' ss Score
7.86
5' ss Seq
GAGGTACTA
5' ss Score
6.36
Exon sequences
Seq C1 exon
TCCACTTTGGGAAACCCAAGGCTGGAGACAGACTGAAACAGCCGTTTGCTATGGCGCACCAGATACCTTACTGTATAGATGGCTGAGTTTGGAGATGGATG
Seq A exon
TGCATCTGATTGGCAGACTCTAAATCACATTTGGAACCTGAGCTGCAAGGGAGTCTGGAAAAGCAGAGTCTAGTTTTCCTGTCTGAG
Seq C2 exon
AGATCCCCCAGTGTGCTGGCTGCAACCAACATATCCTGGACAAGTTTATCCTCAAGGTCCTAGACAGACACTGGCACAGCTCCTGTCTCAAGTGTGCAGACTGCCAGATGCAGCTGGCTGACCGGTGCTTTTCCAGGGCTGGCAGCGTCTACTGCAAGGAAGACTTCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003992-'6-1,'6-0,7-1
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0041217=LIM=PU(94.6=91.4)
Main Inclusion Isoform:
ENSBTAT00000005216fB3816
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
GGAGACAGACTGAAACAGCCG
R:
GCAGTCTGCACACTTGAGACA
Band lengths:
182-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development