BtaALTA0026466-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000010138 | SEMA3B
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B [Source:HGNC Symbol;Acc:HGNC:10724]
Coordinates
chr22:50655949-50656528:-
Coord C1 exon
chr22:50656389-50656528
Coord A exon
NA
Coord C2 exon
chr22:50655949-50656049
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCCCGCTGATCCATCAGCAGGTG
3' ss Score
5.9
Exon sequences
Seq C1 exon
ACTCATCCCACCCTGTGCTGCTGGAGCAGAAGGTGCTGGGTGTGGAGGGAGGTAGCGCCTTCCTGGAGTGTGAGGCCCGCTCGCTGCAGGCGCACGTGGAGTGGACCTTCCAGCGCGCGGGGGAGTCGGCCTACACTCAG
Seq A exon
NA
Seq C2 exon
GTGCCTGCGGAAGAGCGAGCTGAGCGCACGAGGAGGGGATTGCTGCTGCGCGGGCTGCGGCGTGGGGACTCCGGCTTGTACCTGTGTGCAGCGGTGGAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010138-26-37,26-36-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.530
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(15.4=21.3),PF0768612=V-set=FE(43.0=100)
A:
NA
C2:
PF0768612=V-set=PD(43.9=34.8)
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
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGTCGGCCTACACTCAG
R:
ACACAGGTACAAGCCGGAGTC
Band lengths:
107-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development