GgaEX7011886 @ galGal4
Exon Skipping
Gene
ENSGALG00000006169 | LIMA1
Description
LIM domain and actin binding 1 [Source:HGNC Symbol;Acc:HGNC:24636]
Coordinates
chrLGE22C19W28_E50C23:260391-264178:+
Coord C1 exon
chrLGE22C19W28_E50C23:260391-260448
Coord A exon
chrLGE22C19W28_E50C23:261007-261122
Coord C2 exon
chrLGE22C19W28_E50C23:264045-264178
Length
116 bp
Sequences
Splice sites
3' ss Seq
CCTCTCTTCTCCTCCCTTAGTTG
3' ss Score
8.94
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
Exon sequences
Seq C1 exon
GTTTCTGTGGGTGAGAACAGCCTATCTTTCCACTCCAGCCTTTCAGAGGATGGGAATG
Seq A exon
TTGGACAAAACCTGGAGAGCGAGACAGAAGTTCAGAAACCTGTCAGCACAAAACAGCAAAACTTTGGCTCCAAATCACTTGGCCAGACAGATGCATCTCTGCCAAAAACGGTGAAG
Seq C2 exon
AAGTTTCAGTTGCCAGCAAAGGAAACCTGCGTTGGGTGTCAGAAGACAGTGTACCCAATGGAAAGGCTCCTTGCCAACCAGCAGGTGTTCCACATCAGCTGTTTCCGCTGTTCCTATTGCAACAGTAAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006169-'15-14,'15-11,17-14=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=0.667 A=0.752 C2=0.000
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:
GTTTCTGTGGGTGAGAACAGC
R:
TGAGTTTACTGTTGCAATAGGAAC
Band lengths:
191-307
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]