RnoEX6018834 @ rn6
Exon Skipping
Gene
ENSRNOG00000004812 | Sema6d
Description
semaphorin 6D [Source:RGD Symbol;Acc:1310910]
Coordinates
chr3:116899878-116944249:+
Coord C1 exon
chr3:116899878-116900343
Coord A exon
chr3:116943294-116943454
Coord C2 exon
chr3:116944138-116944249
Length
161 bp
Sequences
Splice sites
3' ss Seq
ATGGTGCTTTTGTCTTCCAGGAA
3' ss Score
10.87
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
AAGAAAAGACACCCTAGGCTGCAAGGAAAAGTTTCTTCCTGGCAGGGCTGGCTCTGCGCTGTTCCGCAAGCCGTCAGGGTGAGCCCGCCTTCCTCGCCGCGGGGCTTGCAGCCTCCAACCCTCCAGCCCGCAGCGCAGCCCAGGCTGCCCGGCCACCTTCGGCTGGGAGGACGCCTGGGAGCGCGGAGCCACTGACTGGGCACCCACCCGCGGGGTTCTCAGCCACTCTCCCCCGCAACTTTGCGTGCTTTGTTCTCTGACTGAAAAATGCTCCACCGAAGCGCCCTGGACGGGGTCTTCTCCAGGCGGCAAGGGCTCGACCGGGAGACGTGTTACGCTCTCAGCTCCCCATCAATTATGGATGGAAACAAATAAGGAAAAGTCAATTTTGTATGAGCCGCTTCTTTCGCGGCTAGAGGCGTCTTGTAGCCGGGAGCAGAGGCAGGCAAACCGAGGCCAACACCAG
Seq A exon
GAAGCTAAGTGGGACTTCTGAGGAGGGAGCTCAGATACCTTCTCGGCCAACCATGAGGTTCTTTCTGCTGTGGTTCTGTGTGCTGTTCCTTCTGGTCTCCAGGTTACGGGCCGTCAGCTTCCCTGAGGACGATGAGCCCCTTAACACGGTTGACTACCACT
Seq C2 exon
ATTCAAGGCAATATCCGGTTTTTAGAGGACGCCCTTCAGGCAACGAATCGCAGCATAGGCTGGACTTTCAGCTGATGTTGAAAATTCGAGACACACTTTATATTGCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004812-'7-8,'7-6,15-8=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:
NO
C2:
PF0140314=Sema=PU(4.0=42.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCGTGCTTTGTTCTCTGACT
R:
GGCGTCCTCTAAAAACCGGAT
Band lengths:
258-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]