DreEX6009083 @ danRer10
Exon Skipping
Gene
ENSDARG00000104815 | lmx1ba
Description
LIM homeobox transcription factor 1, beta a [Source:ZFIN;Acc:ZDB-GENE-050114-3]
Coordinates
chr5:4617834-4622257:-
Coord C1 exon
chr5:4622180-4622257
Coord A exon
chr5:4621377-4621443
Coord C2 exon
chr5:4617834-4617998
Length
67 bp
Sequences
Splice sites
3' ss Seq
TTTCTTTTGTTCCTGCTCAGATG
3' ss Score
9.78
5' ss Seq
AAGGTACAA
5' ss Score
6.82
Exon sequences
Seq C1 exon
GTGAGAGAGACTCTGGCTGCTGAGACGGGTTTGAGTGTTCGAGTCGTGCAGGTGTGGTTTCAGAACCAGAGAGCAAAG
Seq A exon
ATGAAGAAATTAGCACGCCGACAACAGCAGCAACAGGAGCAGCAGAACTCTCAGAGACTCGGACAAG
Seq C2 exon
ATGTGATGTCCAGCCGGATGGAGAATCTGATGAGCTCTTACACACCGCTCGCTCCTCCTCCTCCGCATGCGTTGGTATCTATGGAGAGCAGCGGATACAGCACAGACCCCTTCCAGCAAGGCCTCACGCCGCCGCAGATGCCCGGAGACCACATGAACCCATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104815-'3-4,'3-3,4-4=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=0.115 A=1.000 C2=0.982
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(43.9=100)
A:
PF0004624=Homeobox=PD(3.5=8.7)
C2:
NO
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:
GCTGAGACGGGTTTGAGTGTT
R:
TGGAAGGGGTCTGTGCTGTAT
Band lengths:
175-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]