DreEX6046114 @ danRer10
Exon Skipping
Gene
ENSDARG00000020354 | lmx1a
Description
LIM homeobox transcription factor 1, alpha [Source:ZFIN;Acc:ZDB-GENE-041014-332]
Coordinates
chr20:34030524-34033852:+
Coord C1 exon
chr20:34030524-34030744
Coord A exon
chr20:34031229-34031410
Coord C2 exon
chr20:34033775-34033852
Length
182 bp
Sequences
Splice sites
3' ss Seq
ATCTGTTTCCTGGATCACAGGTA
3' ss Score
6.8
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
Exon sequences
Seq C1 exon
GCTGTTTGTGGTGCGGTGTCAGGGCTGCTCAGAGATCATCTCTCCGTCTGAGCTGGTGATGCGCGCACAGGGCTCTGCTGTTTTTCACCTGCGCTGCTTCTGCTGCTGTGTGTGCGGCTGCCGGCTGCAGAAGGGAGATCACTGTGTGCTCCGAGGAGACGGCCTCTTCTGTGCCACACACTTCCACAACCAACTGGCCAGTCCCACCTCCTCTGACTCAG
Seq A exon
GTAAAAGTGAGGATATTGAGGAGGACAACGATGATGAAGACAACTTGAAGACTGCAGGAGAGTCAAACATAACAGGAGACGTGGAACACAAGAGGCCTAAAAGACCTCGTACCATCCTGACAACACAACAGAGACGGGCTTTCAAAGCTTCTTTTGAGGTTTCATCCAAACCCTGCCGAAAG
Seq C2 exon
GTGAGGGAGACTCTGGCAGCAGAGACAGGACTGAGCGTACGAGTCGTTCAGGTCTGGTTCCAGAACCAAAGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020354-'7-6,'7-5,8-6=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=0.697 C2=0.000
Domain overlap (PFAM):
C1:
PF0041217=LIM=WD(100=83.6),PF074236=DUF1510=PU(13.2=25.5)
A:
PF074236=DUF1510=FE(56.6=100),PF0004624=Homeobox=PU(47.4=44.3)
C2:
PF074236=DUF1510=FE(23.6=100),PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TCATCTCTCCGTCTGAGCTGG
R:
TGGAACCAGACCTGAACGACT
Band lengths:
248-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]