BtaALTA0026478-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000046924 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:HGNC:30400]
Coordinates
chr22:49006585-49008466:+
Coord C1 exon
chr22:49006585-49006724
Coord A exon
chr22:49008035-49008087
Coord C2 exon
chr22:49008088-49008466
Length
53 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCTCCCACACCTCCAGCAGGTG
3' ss Score
6.06
Exon sequences
Seq C1 exon
AGGAGACTGCAGGACTCGTGGCGACCACCACTGTCTACGGCACGGAGCACAACAGCACCTTCCTAGAGTGTCTGCCCAAGTCCCCACAGGCTGCCGCGCATTGGTTCTTGCAGAGGCCCGGGGACGAGAGGCCTGAGCAG
Seq A exon
GTGAAGACTGACGAGCGCGTCCTGCAAACAGAGCAGGGGCTGCTGTTCCGCAG
Seq C2 exon
GCTCAACCGCCTGGATGCGGGCACCTATACCTGCATGACGCTGGAGCATGGCTTCTCCCAGGTGGTGGTCCGCCTGGCTCTGGAGGTGATCGTGCCTGCACAGCTCGACATTCTGTTCCCCCGGGAGCCGAGGCCAGAGGAGCCCACAGCCCGAGGCGGCCCCACCTCCCCCTACTCCAAGGCCTGGTATAAGGATATCATGCAGCTCATCGGCTTCGCCAACCTGCCCCGGGTGGATGAGTACTGTGAGCGAGTGTGGTGCCCCTCCCGCAGCCGCACCCGCGGCAAACAGGCCAAGGGCAAGAGCTGGGTGGGGCTGGAGCTGGGCAAGAAGGTGAAGAGCCGGGTACAGGCCGAGCGCAATCGGACACCCCGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046924-19-18,19-17,19-16-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(3.2=4.3),PF0004720=ig=PU(48.4=63.8)
A:
NA
C2:
PF0004720=ig=PD(48.4=20.8)
Main Skipping 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:
AGCACAACAGCACCTTCCTAG
R:
CGTCATGCAGGTATAGGTGCC
Band lengths:
135-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development