RnoEX0049974 @ rn6
Exon Skipping
Gene
ENSRNOG00000059801 | Lima1
Description
LIM domain and actin binding 1 [Source:RGD Symbol;Acc:1564050]
Coordinates
chr7:141434474-141445544:-
Coord C1 exon
chr7:141445487-141445544
Coord A exon
chr7:141443641-141443750
Coord C2 exon
chr7:141434474-141434607
Length
110 bp
Sequences
Splice sites
3' ss Seq
GTCTTGTGTAACTTCACCAGGTA
3' ss Score
7.16
5' ss Seq
AAGGTACGA
5' ss Score
9.78
Exon sequences
Seq C1 exon
GTTTCTGCAACTGAGAATAGCCTGGTGGCCCACCCTGTCCCTGCAGAAGATGACACCT
Seq A exon
GTAACTCCCAGGGGAGGAGTGAGGCCCAGCAGCCCATATACACTAAGCCGCTGAGTCCCGACGCCAGGACCTCCAGTCTTCCGGAAAGTTCTCCTTCCAAAACAGCGAAG
Seq C2 exon
AAGTTTCAGGCACCCGCAAGAGAGAGCTGCGTGGAGTGTCAGAAGACGGTGTATCCCATGGAACGGCTCCTGGCCAACCAGCAGGTGTTTCACATCAGCTGTTTCCGATGCTCCTACTGCAACAACAAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059801-'21-12,'21-9,22-12
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.967 A=1.000 C2=0.044
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0041217=LIM=PU(61.4=77.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCAACTGAGAATAGCCTGG
R:
AGTTTGTTGTTGCAGTAGGAGCA
Band lengths:
186-296
Functional annotations
There are 1 annotated functions for this event
PMID: 17875928
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: classical fluorescence spectroscopy, detection by mass spectrometry, mutation analysis, protein kinase assay, western blot. ELM ID: ELMI001447; ELM sequence: KPLSPDA; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]