BtaEX6045987 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000005525 | LHX6
Description
LIM homeobox 6 [Source:HGNC Symbol;Acc:HGNC:21735]
Coordinates
chr11:93073315-93078403:-
Coord C1 exon
chr11:93078308-93078403
Coord A exon
chr11:93077931-93078105
Coord C2 exon
chr11:93073315-93073418
Length
175 bp
Sequences
Splice sites
3' ss Seq
TGCTGAGGCTGTCGTTCCAGGTG
3' ss Score
5.77
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GTTATGCAGGCGCAGTTCGCGCAGGACAACAACCCCGACGCGCAGACGCTGCAGAAGCTTGCGGACATGACGGGCCTCAGCCGAAGGGTCATCCAG
Seq A exon
GTGTGGTTTCAAAACTGCCGAGCGCGTCATAAAAAGCACACACCGCAGCATCCAGTGCCGCCCTCTGGGGCGCAGCCGTCCCGCCTCCCCTCCGCCCTGTCCGACGACATCCACTACTCCCCGTTCAGCAGCCCCGAGCGGGCTCGCATGGTCACCCTGCACGGCTACATAGAGA
Seq C2 exon
GTCAGGTACAGTGTGGGCAGGTGCACTGCCGGCTGCCTTACACCGCGCCCCCAGTCCACCTCAAAGCCGATATGGATGGACCACTCTCCAACCGGGGGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005525-'10-9,'10-7,11-9=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=0.610 C2=0.371
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(54.4=100)
A:
PF0004624=Homeobox=PD(19.3=18.6)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTCGCGCAGGACAACAA
R:
CGGTTGGAGAGTGGTCCATCC
Band lengths:
178-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]