DreEX0043332 @ danRer10
Exon Skipping
Gene
ENSDARG00000068365 | lmx1bb
Description
LIM homeobox transcription factor 1, beta b [Source:ZFIN;Acc:ZDB-GENE-050114-2]
Coordinates
chr8:33268777-33271920:-
Coord C1 exon
chr8:33271745-33271920
Coord A exon
chr8:33269315-33269392
Coord C2 exon
chr8:33268777-33268843
Length
78 bp
Sequences
Splice sites
3' ss Seq
ATTTTTGTTTTATGCTGTAGGTA
3' ss Score
9.72
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
AGAAAAGCGAAGATGAGGAGCTGGATATCAAGCCGGAGAAAGGCTCGGGAGGCACCGGGAAGGGAGATGATGGGAAAGACCCTAGAAGACCCAAGAGACCACGTACCATCCTCACCACACAGCAGAGACGAGCCTTCAAGGCGTCGTTCGAGGTGTCTTCCAAACCCTGCCGGAAG
Seq A exon
GTAAGAGAGACACTGGCTGCAGAGACAGGTCTGAGCGTACGCGTGGTTCAAGTGTGGTTCCAGAACCAAAGAGCTAAG
Seq C2 exon
ATGAAGAAGTTGGCGCGGAGACAGCAGCAGCAACAGGAGCAGCAGAACTCCCAAAGGCTGGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068365_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.712 A=0.115 C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=45.8)
A:
PF0004624=Homeobox=FE(43.9=100)
C2:
PF0004624=Homeobox=PD(3.5=8.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAAGGGAGATGATGGGAA
R:
GGAGTTCTGCTGCTCCTGTTG
Band lengths:
172-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]