DreEX0043328 @ danRer10
Exon Skipping
Gene
ENSDARG00000104815 | lmx1ba
Description
LIM homeobox transcription factor 1, beta a [Source:ZFIN;Acc:ZDB-GENE-050114-3]
Coordinates
chr5:4622180-4630282:-
Coord C1 exon
chr5:4630059-4630282
Coord A exon
chr5:4624731-4624909
Coord C2 exon
chr5:4622180-4622257
Length
179 bp
Sequences
Splice sites
3' ss Seq
TGCAATTGTTGTTTCTGTAGACA
3' ss Score
7.16
5' ss Seq
AAGGTGAAC
5' ss Score
5.54
Exon sequences
Seq C1 exon
GCTGTTCGCCACCAAGTGCAGCGGGTGTCTGGAGAAGATCTCCCCTACGGAGTTAGTGATGCGCGCACTGGAGAGTGTGTATCACCTGAGCTGCTTCTGCTGCTGCGTGTGTGAGCGCCGGCTGTGCAAAGGAGATGAGTTTGTGCTGAAGGAAGGACAGCTGCTCTGCAAGACCGACTACGAGAGAGAGAAAGATCTCGCCAGCCCAGACCTCTCCGACTCCG
Seq A exon
ACAAAAGTGAGGATGAAGATCTGGATGTGAAGCCGGAGAAAGGCGCTGGCGGTCAGGGAAAAGGCAGTGATGACAGCAAAGACCCTCGCAGACCCAAAAGACCCCGAACCATCCTCACCACACAGCAGAGACGTGCATTTAAGGCCTCCTTCGAGGTCTCGTCCAAACCGTGCAGAAAG
Seq C2 exon
GTGAGAGAGACTCTGGCTGCTGAGACGGGTTTGAGTGTTCGAGTCGTGCAGGTGTGGTTTCAGAACCAGAGAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104815-'1-2,'1-1,2-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=0.700 C2=0.115
Domain overlap (PFAM):
C1:
PF0041217=LIM=WD(100=77.6)
A:
PF0004624=Homeobox=PU(47.4=45.0)
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACGGAGTTAGTGATGCGC
R:
TTCTGAAACCACACCTGCACG
Band lengths:
246-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]