RnoEX6045267 @ rn6
Exon Skipping
Gene
ENSRNOG00000004642 | Lmx1a
Description
LIM homeobox transcription factor 1 alpha [Source:RGD Symbol;Acc:1304784]
Coordinates
chr13:85920736-86050291:+
Coord C1 exon
chr13:85920736-85920922
Coord A exon
chr13:86017080-86017312
Coord C2 exon
chr13:86050119-86050291
Length
233 bp
Sequences
Splice sites
3' ss Seq
TCTTTCTCTCCCACTTGTAGACT
3' ss Score
10.89
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
GCAGAGCGGTGAGCCCCAAGTCTGTCTGCGAGGGCTGTCAGCGGGTCATCTCGGATAGGTTTCTGCTGAGACTCAACGACAGCTTCTGGCACGAGCAATGCGTGCAGTGCGCCTCTTGCAAAGAGCCCCTGGAGACCACCTGCTTCTACCGGGACAAGAAGCTCTACTGCAAGTACCACTACGAGAA
Seq A exon
ACTGTTTGCTGTCAAATGTGGGGGCTGCTTCGAAGCCATTGCGCCCAATGAGTTTGTCATGCGTGCCCAGAAGAGTGTGTACCACCTGAGCTGTTTCTGCTGCTGTGTCTGCGAGCGACAGCTGCAGAAGGGTGATGAGTTTGTCCTGAAGGAGGGCCAGCTGCTCTGCAAAGGAGACTATGAGAAGGAGCGAGAGTTGCTGAGCCTGGTGAGCCCAGCAGCCTCAGACTCAG
Seq C2 exon
GCAAAAGTGATGATGAGGAGAGTCTTTGCAAGTCAGCCCACGGGGCAGGGAAAGGAGCATCAGAGGACGGCAAGGACCATAAGCGACCCAAACGTCCCAGAACCATCTTGACCACTCAGCAGAGGAGAGCATTCAAGGCCTCATTTGAAGTATCCTCCAAGCCCTGCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004642-'1-2,'1-1,6-2=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.552
Domain overlap (PFAM):
C1:
PF0041217=LIM=PU(94.6=84.1)
A:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
C2:
PF0004624=Homeobox=PU(47.4=46.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCGGGTCATCTCGGATAG
R:
TGAGGCCTTGAATGCTCTCCT
Band lengths:
293-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]