RnoALTD0026987-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000017704 | Sema3f
Description
semaphorin 3F [Source:RGD Symbol;Acc:1308514]
Coordinates
chr8:116443721-116444486:-
Coord C1 exon
chr8:116444379-116444486
Coord A exon
chr8:116444360-116444378
Coord C2 exon
chr8:116443721-116443809
Length
19 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TCCTGCCCGGCCCGTTCCAGACC
3' ss Score
6.64
Exon sequences
Seq C1 exon
GCCGTCTACCCGCTGCAGCGGCGCCCCCTGGTGGTCCGTACAGGCGCTCCCTACCGCCTCACCACTGTCGCTGTGGACCAGGTGGATGCAGCTGATGGACGCTATGAG
Seq A exon
GTGCTTTTCCTGGGCACAG
Seq C2 exon
ACCGCGGGACAGTGCAGAAGGTCATCGTGCTGCCCAAGGATGATCAGGAGGTGGAAGAGCTCATGTTAGAGGAGGTGGAGGTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017704-22-19,23-19-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(15.6=100)
A:
NA
C2:
PF0140314=Sema=FE(6.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCAGCTGATGGACGCTATG
R:
TTGAAGACCTCCACCTCCTCT
Band lengths:
111-130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]