BtaALTA0026476-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000018307 | SEMA3F
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F [Source:HGNC Symbol;Acc:HGNC:10728]
Coordinates
chr22:50733397-50734377:-
Coord C1 exon
chr22:50734244-50734377
Coord A exon
NA
Coord C2 exon
chr22:50733397-50733497
Length
0 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACT
5' ss Score
5.88
3' ss Seq
CGGCCTCTACTCCTGTACAGCCA
3' ss Score
6.06
Exon sequences
Seq C1 exon
CCAATAAGAACGCCGTGGAGTCTGTGCAGTACGGTGTGGCAGGGAGCACAGCCTTCCTTGAGTGCCAGCCCCGCTCGCCCCAGGCTACCGTGAAGTGGCTGTTCCAGCGAGATCCCAGTGACCGGCGCCGCGAG
Seq A exon
NA
Seq C2 exon
CCACCGAGAACAACTTCAAGCACATCATCACACGGGTGCAGCTGCATGTCCTGGGCCAGGAAGACATCCGTACGGCCCTCTTCCCACCGCCAGCTGCAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018307-22-25,22-24-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.559
Domain overlap (PFAM):
C1:
PF0768612=V-set=PU(46.7=93.3)
A:
NA
C2:
PF0768612=V-set=PD(51.1=31.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAATAAGAACGCCGTGGAGT
R:
CCCGTGTGATGATGTGCTTGA
Band lengths:
170-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development