BtaALTA0026480-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012228 | SEMA4A
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4A [Source:HGNC Symbol;Acc:HGNC:10729]
Coordinates
chr3:14675086-14675513:-
Coord C1 exon
chr3:14675415-14675513
Coord A exon
NA
Coord C2 exon
chr3:14675086-14675191
Length
0 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
AGCCACTTCCCCCCCTCTAGGAA
3' ss Score
8.58
Exon sequences
Seq C1 exon
ACACAGTGTTTCAACTTTATTCGTGTCCTGGTATCCTTCAACTCCACCCACCTCTACGCCTGCGGCACGTTTGCCTTCAGCCCTGCTTGTACCTTCATT
Seq A exon
NA
Seq C2 exon
GAACTCCAAGATTCCAGACTGTTGCCCATCTCGGAGGACAGGGTTGTGGAGGGGAAAGGCCAAAGCCCCTTCGACCCCACCCATAAGCACACGGCTGTCATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012228-5-7,5-6-1/2
Average complexity
Alt3
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=0.167
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.7=100)
A:
NA
C2:
PF0140314=Sema=FE(10.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
TCAACTCCACCCACCTCTACG
R:
ACAACCCTGTCCTCCGAGATG
Band lengths:
109-127
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development