RnoEX6045266 @ rn6
Exon Skipping
Gene
ENSRNOG00000004642 | Lmx1a
Description
LIM homeobox transcription factor 1 alpha [Source:RGD Symbol;Acc:1304784]
Coordinates
chr13:86050119-86054050:+
Coord C1 exon
chr13:86050119-86050291
Coord A exon
chr13:86052375-86052452
Coord C2 exon
chr13:86053981-86054050
Length
78 bp
Sequences
Splice sites
3' ss Seq
TGTGTTTAATTTTCTTCAAGGTG
3' ss Score
8.57
5' ss Seq
AAGGTAATC
5' ss Score
7.46
Exon sequences
Seq C1 exon
GCAAAAGTGATGATGAGGAGAGTCTTTGCAAGTCAGCCCACGGGGCAGGGAAAGGAGCATCAGAGGACGGCAAGGACCATAAGCGACCCAAACGTCCCAGAACCATCTTGACCACTCAGCAGAGGAGAGCATTCAAGGCCTCATTTGAAGTATCCTCCAAGCCCTGCAGAAAG
Seq A exon
GTGAGGGAGACTCTGGCTGCGGAGACAGGGCTGAGTGTCCGTGTGGTTCAGGTGTGGTTCCAGAACCAGCGAGCCAAG
Seq C2 exon
ATGAAGAAGCTGGCCCGGCGACAGCAGCAACAGCAACAGGATCAACAGAACACCCAGAGGCTGAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004642-'8-4,'8-3,10-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=0.077 C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=46.6)
A:
PF0004624=Homeobox=FE(43.9=100)
C2:
PF0004624=Homeobox=PD(3.5=8.3)
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:
ACCATAAGCGACCCAAACGTC
R:
AGAACTCAGCCTCTGGGTGTT
Band lengths:
167-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]