DreEX6020733 @ danRer10
Exon Skipping
Gene
ENSDARG00000006639 | lnpb
Description
limb and neural patterns b [Source:ZFIN;Acc:ZDB-GENE-030131-9455]
Coordinates
chr6:10626911-10628205:-
Coord C1 exon
chr6:10628168-10628205
Coord A exon
chr6:10627051-10627099
Coord C2 exon
chr6:10626911-10626952
Length
49 bp
Sequences
Splice sites
3' ss Seq
AGTTTTCCTTCTGTTTTAAGGTG
3' ss Score
9.86
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
ACTGTCGCCCGTTCAACCTCCGATCAATCTGCAAAAAG
Seq A exon
GTGTGGATTTGCAGTACTGACAATGGGAGCCATCATTTCCAGGTGGAAG
Seq C2 exon
ACCAAACCTTCCACTGTGGAACTGCTAGAGTCACTGGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006639-'0-4,'0-3,4-4=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF083957=7tm_7=PU(5.7=88.9),PF110263=DUF2721=PU(5.6=77.8)
C2:
PF083957=7tm_7=FE(9.3=100),PF110263=DUF2721=FE(10.5=100),PF060117=TRP=PU(9.2=71.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCGCCCGTTCAACCTC
R:
ATCCAGTGACTCTAGCAGTTCCA
Band lengths:
76-125
Functional annotations
There are 1 annotated functions for this event
PMID: 20213681
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: detection by mass spectrometry. ELM ID: ELMI002336; ELM sequence: MGGLFSR; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]