BtaALTD0019388-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000018307 | SEMA3F
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F [Source:HGNC Symbol;Acc:HGNC:10728]
Coordinates
chr22:50735427-50736373:-
Coord C1 exon
chr22:50736170-50736373
Coord A exon
chr22:50736151-50736169
Coord C2 exon
chr22:50735427-50735515
Length
19 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
CCCTGCCCGGCCCGTTCCAGACC
3' ss Score
7.03
Exon sequences
Seq C1 exon
TGCCCTGGCGGAACCTTCACGCCGTCCATGAAGTCCACCAAAGACTACCCTGATGAAGTCATCAACTTCATGCGCAGCCACCCGCTCATGTACCAGGCCATCTACCCTCTGCAGCGGCGGCCCCTGGTGGTCCGCACAGGCGCGCCCTACCGTCTCACCACTGTGGCCGTGGACCAGGTGGACGCAGCCGACGGGCGCTATGAG
Seq A exon
GTGCTTTTCCTGGGCACAG
Seq C2 exon
ACCGCGGGACAGTGCAGAAGGTCATCGTGCTGCCTAAGGACGACCAGGAGATGGAGGAGCTCATGCTAGAGGAGGTCGAGGTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018307-15-19,16-19-2/2
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=0.100
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(15.6=100)
A:
NA
C2:
PF0140314=Sema=FE(6.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACCGTCTCACCACTGTGG
R:
ATCTCCTGGTCGTCCTTAGGC
Band lengths:
111-130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development