DreEX0043329 @ danRer10
Exon Skipping
Gene
ENSDARG00000104815 | lmx1ba
Description
LIM homeobox transcription factor 1, beta a [Source:ZFIN;Acc:ZDB-GENE-050114-3]
Coordinates
chr5:4621377-4624909:-
Coord C1 exon
chr5:4624731-4624909
Coord A exon
chr5:4622180-4622257
Coord C2 exon
chr5:4621377-4621443
Length
78 bp
Sequences
Splice sites
3' ss Seq
GTTTGTGTGTGTTATTCAAGGTG
3' ss Score
6.71
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
ACAAAAGTGAGGATGAAGATCTGGATGTGAAGCCGGAGAAAGGCGCTGGCGGTCAGGGAAAAGGCAGTGATGACAGCAAAGACCCTCGCAGACCCAAAAGACCCCGAACCATCCTCACCACACAGCAGAGACGTGCATTTAAGGCCTCCTTCGAGGTCTCGTCCAAACCGTGCAGAAAG
Seq A exon
GTGAGAGAGACTCTGGCTGCTGAGACGGGTTTGAGTGTTCGAGTCGTGCAGGTGTGGTTTCAGAACCAGAGAGCAAAG
Seq C2 exon
ATGAAGAAATTAGCACGCCGACAACAGCAGCAACAGGAGCAGCAGAACTCTCAGAGACTCGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104815-'2-3,'2-2,3-3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.700 A=0.115 C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=45.0)
A:
PF0004624=Homeobox=FE(43.9=100)
C2:
PF0004624=Homeobox=PD(3.5=8.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCAGGGAAAAGGCAGTGAT
R:
TGAGAGTTCTGCTGCTCCTGT
Band lengths:
182-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]