BtaALTA0026485-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021920 | SEMA4C
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C [Source:HGNC Symbol;Acc:HGNC:10731]
Coordinates
chr11:2791324-2793644:-
Coord C1 exon
chr11:2793430-2793644
Coord A exon
chr11:2791470-2791472
Coord C2 exon
chr11:2791324-2791469
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TGACCCTTTCTTTCCCCCAGCAG
3' ss Score
9.58
Exon sequences
Seq C1 exon
CGGCGGAGAAAGAGCCGGCGCCCGCCGCGGTGGCGCGGGGAGCCCGAGCCCAGGGGCGCCGAGCCGAGCCGGGCCGAGGGGCGGTGGCAGAGGGGCAGCGGAGCAGGGCGGGCAGGCGCGCGCGGGCGGGCGGGCGGCGGCGCGCGGGAAGAGGCGGACCGTGGTCGGAGCCGAACGCGAGGGCGGCGCCCAGAGATTCAAGCAGCGAAGAAGAG
Seq A exon
CAG
Seq C2 exon
GGCAGCTGGCCTGGAGCTCGGCGCCCGGGCGTGTGCCATGGCCCCACACTGGGCCGTCTGGCTGCTGGTACTGGAGCTGTGGGGCCTGGGCCTTGGGGCTGAGGTGTGGTGGAACCTGGTACCCCGGAAGACGGTATCTTCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021920-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
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:
CCCAGAGATTCAAGCAGCGAA
R:
CTCCAGTACCAGCAGCCAGA
Band lengths:
103-106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development