MmuEX6078325 @ mm10
Exon Skipping
Gene
ENSMUSG00000039316 | Rftn1
Description
raftlin lipid raft linker 1 [Source:MGI Symbol;Acc:MGI:1923688]
Coordinates
chr17:50107070-50190674:-
Coord C1 exon
chr17:50190221-50190674
Coord A exon
chr17:50169003-50169159
Coord C2 exon
chr17:50107070-50107256
Length
157 bp
Sequences
Splice sites
3' ss Seq
TGGTTCTTTCCACGTTGTAGACA
3' ss Score
5.7
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GAGGGAGAGCCCGGTTGCGCGGCGCTGGCGACGCACGGGGCGGACGGGTCTCTCGTGCGGGGCTGCCAGGGGCCGCTCGGCTTCCCCCAAGAAGATGCAGCACAGCATATTTTGCACATGAGTTCAGAGGAAGAGGAAGTGTAGCGGGCGGACGCGCGGCGGAGGCGGCGGCGGCGGCGCGGGGTGGAGTGGGGGCGGCGGGGCTGGAATCAGAGCGCGCAGGGCGCAGAGCGCAGCGAGCGGGAGCGCGGCGGCCACTGGCTCTGGAGAGGTACCTGTGCGGCCAGCGCCGGAGGGACAGACGACAAGCGAGCGGCCGCGCCCCGCGCTCTGCCCCCACCCCCGGGGTCGCGTCGTCCGCGCGCCGCCCTGCTCTGCATGGCACAAACTTTCATCCCGGGACACAGCACGCTGTCTCCGCCCGCGCCACGGTCACCGCTGCTGGTCCCCTAAG
Seq A exon
ACAGCTGTCAAGATGGGTTGCAGTTTGAACAAGCTGGAGAAACGTGAAGAAAAGCGGCCTGGGAACATTTATTCAACTCTGAAGAGACCTCAGGTGGAGACCAAAGTAGATGTGACCTATGAGTACTGCTTTCTAGAGTTCACCACACTGACTGCCG
Seq C2 exon
CGGAGCTGCCGAGATCCTCCGCCACGAGGTTAGCCTCTCTGCGGGACCTGCCTGACCAGCTTCTGGAGCTGTACCAACAAGGCTTCTCACTGGCCGCCCTGCACCCATTTGTGCAGCCAACCCGCAGGCAAGAGAAGATCCTCCTGGAACACATCTTTCGGGCCATCCTGGTCAAGAAAACCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039316-'0-7,'0-1,9-7
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=0.184 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF152501=Raftlin=PU(9.9=98.0)
C2:
PF152501=Raftlin=FE(12.8=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCACAAACTTTCATCCCGG
R:
GGATGGCCCGAAAGATGTGTT
Band lengths:
243-400
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]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types