BtaEX6020742 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000012342 | LIMA1
Description
LIM domain and actin binding 1 [Source:HGNC Symbol;Acc:HGNC:24636]
Coordinates
chr5:29884908-29893867:+
Coord C1 exon
chr5:29884908-29884971
Coord A exon
chr5:29886524-29886633
Coord C2 exon
chr5:29893734-29893867
Length
110 bp
Sequences
Splice sites
3' ss Seq
TCCTTCTGTAACTCAAGCAGGTA
3' ss Score
5.03
5' ss Seq
AAGGTATGA
5' ss Score
9.11
Exon sequences
Seq C1 exon
GTTTCTGCATCTGAGAATAGCCTGGCAGCCCATTCCACCCTTGCTGAAGATGATTCCCGTAAGT
Seq A exon
GTAACTCCCAGGTCAAGAGTGAGGTCCAGCAGCCTGTGCATCCCAAGCCATTAAGTCCAGATGCCAGAGCCTCCAGCCTTTCTGAAAGTTCTCCTCCCAAAGCAGTGAAG
Seq C2 exon
AAGTTTCAGGCACCCGCAAGAGAGACCTGCGTGGAATGTCAGAAAACAGTCTACTCGATGGAGCGTCTCTTGGCCAACCAGCAGGTGTTTCACATCAGCTGCTTCCGTTGTTCCTATTGCAACAGCAAGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012342-'16-11,'16-9,17-11=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.894 A=0.973 C2=0.011
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:
TTTCTGCATCTGAGAATAGCCTGG
R:
GTTGCAATAGGAACAACGGAAGC
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]