DreEX0061796 @ danRer10
Exon Skipping
Gene
ENSDARG00000070831 | rftn1a
Description
raftlin, lipid raft linker 1a [Source:ZFIN;Acc:ZDB-GENE-060503-293]
Coordinates
chr19:20751316-20803741:-
Coord C1 exon
chr19:20803620-20803741
Coord A exon
chr19:20783915-20784058
Coord C2 exon
chr19:20751316-20751499
Length
144 bp
Sequences
Splice sites
3' ss Seq
GTTTTTCTCCACATGTGCAGACA
3' ss Score
6.57
5' ss Seq
AAGGTACAC
5' ss Score
7.56
Exon sequences
Seq C1 exon
ATCCTCTCCTCACCTGCATCCAGTTCACACAAACAACAGAGGACAGGAAGCAAAACACAACTGAGGTAGACGAACCGCCGAAGAAACACGTCGAGACAAACATCATCAAAGAACAGCAGCAG
Seq A exon
ACATGGGCTGTAAGTTGCCAAAGCCCAAAGGGTCAGATGAAGCTCCGGGAAAGATTTTCTCCACCCTTAGAAGAGCGCAAGTGGAGACACACTCAGGAGTGGCCTACACGTACCATTTCCTGGACTTTCTGTTAGGGAAGGAAG
Seq C2 exon
AAGTGGCCGTGTCCTCTGTGCTGTGTCTGTCATCAGTCAGAGAGCTCCCGGTGCAGGTGTGTGATTTGTATCAGAAGGGATTCGTTCTGGCTGCTGTCCATCCTTTTGTTCACTCCTGCGGCCCTGCTAATGCTAACCTACAGAAGCAGCTACACCGAGCAGTGCTCATCAGACAAACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070831_CASSETTE1
Average complexity
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=0.083 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF152501=Raftlin=PU(17.0=97.9)
C2:
PF152501=Raftlin=FE(22.0=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCACCTGCATCCAGTTCAC
R:
GGTTAGCATTAGCAGGGCCG
Band lengths:
253-397
Functional annotations
There are 1 annotated functions for this event
PMID: 12805216
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: classical fluorescence spectroscopy, colocalization, mutation analysis, western blot. ELM ID: ELMI002323; ELM sequence: MGCGLNK; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]