GgaALTD1020704-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000027651 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:HGNC:10740]
Coordinates
chr25:1781752-1782033:-
Coord C1 exon
chr25:1781940-1782033
Coord A exon
chr25:1781917-1781939
Coord C2 exon
chr25:1781752-1781840
Length
23 bp
Sequences
Splice sites
5' ss Seq
GGGGTGCGT
5' ss Score
5.27
3' ss Seq
GATGGCCGCGCTGTCCCCAGAGC
3' ss Score
8.84
Exon sequences
Seq C1 exon
ACGACCGTCTGTACTCCGCCACCGTGGCCGACTTCCAGGCGAGCGACGCCGTCATCTACCGCAGTGTGCGCGGCCCGGCGCTGCGCAGCATCAA
Seq A exon
GTACAGCTCCCGCTGGCTGCGGG
Seq C2 exon
AGCCGCACTTCGTCCACGCGATGCCCCACGGAGCGCACGTCTACTTCTTCTTCCGGGAGATGGCGGCGGAGCTGGGGCTGCCGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027651-7-7,8-7-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(9.4=100)
A:
NA
C2:
PF0140314=Sema=FE(7.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTCATCTACCGCAGTGTG
R:
GCCATCTCCCGGAAGAAGAAG
Band lengths:
110-133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]