DreEX0043324 @ danRer10
Exon Skipping
Gene
ENSDARG00000020354 | lmx1a
Description
LIM homeobox transcription factor 1, alpha [Source:ZFIN;Acc:ZDB-GENE-041014-332]
Coordinates
chr20:34021356-34031410:+
Coord C1 exon
chr20:34021356-34021477
Coord A exon
chr20:34030524-34030744
Coord C2 exon
chr20:34031229-34031410
Length
221 bp
Sequences
Splice sites
3' ss Seq
CTTTTGTTTTGTCCTGTCAGGCT
3' ss Score
8.83
5' ss Seq
CAGGTATTG
5' ss Score
8.35
Exon sequences
Seq C1 exon
CATCGACACGATGCTCGGACCCCCTCGGCTACCCCAAAACTCAGTCTGATTCACATTCTCACCTCCAAATGCGAAAAAGTCTGCCAAACGACCGAGCGTGATCGACGTTAGTAAAGGTAAAG
Seq A exon
GCTGTTTGTGGTGCGGTGTCAGGGCTGCTCAGAGATCATCTCTCCGTCTGAGCTGGTGATGCGCGCACAGGGCTCTGCTGTTTTTCACCTGCGCTGCTTCTGCTGCTGTGTGTGCGGCTGCCGGCTGCAGAAGGGAGATCACTGTGTGCTCCGAGGAGACGGCCTCTTCTGTGCCACACACTTCCACAACCAACTGGCCAGTCCCACCTCCTCTGACTCAG
Seq C2 exon
GTAAAAGTGAGGATATTGAGGAGGACAACGATGATGAAGACAACTTGAAGACTGCAGGAGAGTCAAACATAACAGGAGACGTGGAACACAAGAGGCCTAAAAGACCTCGTACCATCCTGACAACACAACAGAGACGGGCTTTCAAAGCTTCTTTTGAGGTTTCATCCAAACCCTGCCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020354-'3-5,'3-4,7-5
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.108 C2=0.697
Domain overlap (PFAM):
C1:
NA
A:
PF0041217=LIM=WD(100=83.6),PF074236=DUF1510=PU(13.2=25.5)
C2:
PF074236=DUF1510=FE(56.6=100),PF0004624=Homeobox=PU(47.4=44.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGACACGATGCTCGGACC
R:
CTTTCGGCAGGGTTTGGATGA
Band lengths:
303-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]