DreEX6034735 @ danRer10
Exon Skipping
Gene
ENSDARG00000063646 | lnpa
Description
limb and neural patterns a [Source:ZFIN;Acc:ZDB-GENE-030131-4960]
Coordinates
chr9:2020028-2026479:+
Coord C1 exon
chr9:2020028-2020123
Coord A exon
chr9:2025334-2025432
Coord C2 exon
chr9:2026438-2026479
Length
99 bp
Sequences
Splice sites
3' ss Seq
TTCCTTCATTGTGTGAACAGGTG
3' ss Score
9
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
Exon sequences
Seq C1 exon
TCCGTGCCGCGCGGGGTTGTGGGAACACTTTGGTGACGTCCACTACTCAAGTAGAGGAATAATATTGCAGGTCTCCGCTGGATTTCTTATTCACGG
Seq A exon
GTGTGTGGCTTTGGCCTGGAGTAATAAGTGTAACAGAAGCCAGGCTCTGAGAGGAAGGACTGCCCTCACAGGATGGGGGCTGTGGTGTCTCGGTGGAGG
Seq C2 exon
GCTAAACCATCCACTGTAGAGGTCTTGGAGGGTCTTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063646-'0-3,'0-1,2-3=AN
Average complexity
A_S
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)
C2:
PF083957=7tm_7=FE(9.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCGGGGTTGTGGGAACA
R:
TATCAAGACCCTCCAAGACCTCT
Band lengths:
127-226
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]