RnoEX6016520 @ rn6
Exon Skipping
Gene
ENSRNOG00000017019 | Lmx1b
Description
LIM homeobox transcription factor 1 beta [Source:RGD Symbol;Acc:620843]
Coordinates
chr3:12611932-12614569:-
Coord C1 exon
chr3:12614337-12614569
Coord A exon
chr3:12612210-12612391
Coord C2 exon
chr3:12611932-12612009
Length
182 bp
Sequences
Splice sites
3' ss Seq
TTGGCTTGTGTCTTTCACAGTGA
3' ss Score
8.81
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GCTCTTCGCGGCAAAGTGCAGCGGCTGCATGGAGAAGATCGCACCCACTGAGTTCGTCATGCGGGCGCTCGAGTGTGTGTACCACCTGGGCTGTTTCTGCTGCTGTGTGTGCGAGAGGCAGCTGCGGAAGGGTGATGAGTTCGTGCTCAAGGAGGGCCAGCTGCTGTGCAAGGGTGACTACGAGAAGGAGAAAGACCTCCTCAGCTCCGTGAGCCCGGATGAGTCTGACTCTG
Seq A exon
TGAAGAGTGAGGATGAAGATGGAGACATGAAGCCAGCCAAGGGGCAGGGCAGCCAGAATAAGGGCAGTGGGGATGACGGGAAGGACCCGAGAAGGCCCAAACGGCCCCGGACCATCCTCACCACACAGCAGCGAAGAGCTTTCAAGGCTTCGTTTGAGGTCTCCTCCAAGCCCTGTCGGAAG
Seq C2 exon
GTCCGAGAGACACTAGCCGCAGAGACAGGCCTCAGTGTGCGTGTGGTCCAGGTCTGGTTTCAGAACCAAAGAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017019-'5-5,'5-4,6-5=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=0.114 A=0.754 C2=0.192
Domain overlap (PFAM):
C1:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
A:
PF0004624=Homeobox=PU(47.4=44.3)
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGAGAAGATCGCACCCAC
R:
ACACTGAGGCCTGTCTCTGC
Band lengths:
244-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]