DreEX6066455 @ danRer10
Exon Skipping
Gene
ENSDARG00000011533 | sema6dl
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D, like [Source:ZFIN;Acc:ZDB-GENE-050417-171]
Coordinates
chr18:40374489-40380423:+
Coord C1 exon
chr18:40374489-40374654
Coord A exon
chr18:40376634-40376745
Coord C2 exon
chr18:40380363-40380423
Length
112 bp
Sequences
Splice sites
3' ss Seq
CGCATCTGTTTGTTCTGCAGATG
3' ss Score
10.85
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
Exon sequences
Seq C1 exon
GTAACATTTACATAAGTGCAGTACAGGAGGTGTTTGCCCTCTGTGCCAGCGATGGGGTGGCGAGAACTGACGATTGACCTGCTGATACTCCTGCTGGTGGCGTCCCGTCTGGATGCTGTGAGCTTTCCTGAGGACAACATCCCTTTAGACGTTGTGGACAGACACT
Seq A exon
ATGCACGGCAGTACCCGGTGTTTCGTGGACGTCCCTCTGGTAACGAATCTCAGCACAGACTGGACTTTCAGCTGATGACCCAGATACATGATACGCTGTTCATCGCGGGCAG
Seq C2 exon
GGATCAGGTATATTTGGTGAGTCTGAGGGAGTCCTACAGGAACGAGATCATTCCATACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011533-'2-5,'2-4,3-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0140314=Sema=PU(12.5=44.7)
C2:
PF0140314=Sema=FE(14.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAACATTTACATAAGTGCAGTACAGG
R:
GAATGATCTCGTTCCTGTAGGACT
Band lengths:
218-330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]