RnoEX0049896 @ rn6
Exon Skipping
Gene
ENSRNOG00000003595 | Lhx4
Description
LIM homeobox 4 [Source:RGD Symbol;Acc:1308044]
Coordinates
chr13:73356909-73372334:-
Coord C1 exon
chr13:73372163-73372334
Coord A exon
chr13:73369664-73369890
Coord C2 exon
chr13:73356909-73357111
Length
227 bp
Sequences
Splice sites
3' ss Seq
TATTTCCTTTGTTCTGCAAGACT
3' ss Score
2.46
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
Exon sequences
Seq C1 exon
AGATTCCCCAGTGCGCCGGTTGCAACCAGCACATCCTGGATAAGTTCATCCTGAAGGTCCTGGACAGACACTGGCACAGCTCCTGCCTCAAGTGTGCAGACTGCCAGATGCAGCTAGCTGACAGGTGCTTCTCCAGGGCCGGGAGTGTCTACTGCAAAGAAGATTTTTTCAA
Seq A exon
ACTGCTGGGCTGAGCTGCCTCCCGGTTGATGTGGAGGGAGCTGGCCACAGGCTCAGTGCTGAAGCAGGCCATTAGCTCTGTGAGGAGTGCTGTGAGGAGGAACTTAAAGCCAAGGCCATTAACCAGAGAGGAAGATTGGCACCTCCCAAGTGTCCAGTGAGGAGGCTTGATTTATGAACCTCATCCAACTCTCCGGGACTGAACTGATGCTGCAGGTCCCATCTTAG
Seq C2 exon
GCGCTTTGGCACAAAATGCACAGCGTGCCAGCAGGGCATCCCCCCGACCCAGGTGGTTCGCAAGGCTCAGGACTTCGTCTATCACCTGCACTGCTTTGCCTGCATCATCTGCAACCGGCAGCTGGCCACGGGGGACGAGTTCTACCTTATGGAGGATGGCCGGCTAGTGTGCAAGGAAGACTACGAGACAGCCAAGCAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003595_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.022
Domain overlap (PFAM):
C1:
PF0041217=LIM=PU(94.6=91.4),PF036609=PHF5=PU(26.2=37.9)
A:
PF0041217=LIM=PD(3.6=40.0)
C2:
PF0041217=LIM=PD(3.6=2.9),PF036609=PHF5=PD(72.6=88.4),PF0041217=LIM=WD(100=87.0)
Main Inclusion Isoform:
ENSRNOT00000067253fB7878
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAAGGTCCTGGACAGACA
R:
GTCTTCCTTGCACACTAGCCG
Band lengths:
304-531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]