DreEX6046113 @ danRer10
Exon Skipping
Gene
ENSDARG00000020354 | lmx1a
Description
LIM homeobox transcription factor 1, alpha [Source:ZFIN;Acc:ZDB-GENE-041014-332]
Coordinates
chr20:34033775-34036889:+
Coord C1 exon
chr20:34033775-34033852
Coord A exon
chr20:34035778-34035865
Coord C2 exon
chr20:34036731-34036889
Length
88 bp
Sequences
Splice sites
3' ss Seq
GAATCGCATTGTCTCTGCAGATG
3' ss Score
7.83
5' ss Seq
CTGGTATTT
5' ss Score
3.5
Exon sequences
Seq C1 exon
GTGAGGGAGACTCTGGCAGCAGAGACAGGACTGAGCGTACGAGTCGTTCAGGTCTGGTTCCAGAACCAAAGAGCCAAG
Seq A exon
ATGAAAAAACTGGTGAGAAGACAACAGCAGCAGAAGCAAACTGTGTGCCCACAGGAGAAGAGGGAGAGTCCATCACAACAACATACTG
Seq C2 exon
CGACCTCTTGTGGAGCTCTGCCTGTTGAGCTGGAATGTGCAGGTTCATATCCACTTCCCCAGCAGAATCTCAGTCTAGACTCACAGAGCTTGAAGCTGGACCCCTTCAGACAGGGCCTGACCCCTCCTCAGATGCCCGGAGACCACATGCATCCCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020354-'10-8,'10-7,12-8=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=0.000 A=0.978 C2=0.481
Domain overlap (PFAM):
C1:
PF074236=DUF1510=FE(23.6=100),PF0004624=Homeobox=FE(43.9=100)
A:
PF0004624=Homeobox=PD(3.5=6.7)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACAGGACTGAGCGTACGA
R:
TCTGAAGGGGTCCAGCTTCAA
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]