BtaALTA0026719-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015979 | SEZ6
Description
seizure related 6 homolog (mouse) [Source:HGNC Symbol;Acc:HGNC:15955]
Coordinates
chr19:20884238-20884705:-
Coord C1 exon
chr19:20884537-20884705
Coord A exon
chr19:20884405-20884424
Coord C2 exon
chr19:20884238-20884404
Length
20 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTCAGCGACCAACCACGCAGCTG
3' ss Score
1.12
Exon sequences
Seq C1 exon
CTGCCTGCGGTGGAGTGATCCGCAACGCCACCACCGGCCGCATCGTCTCGCCCGGCTTCCCGGGCAACTACAGCAACAACCTCACCTGCCACTGGCTGCTTGAGGCTCCCGAGGGCCAGCGGTTGCACCTGCACTTTGAGAAGGTTTCCCTGGCTGAGGATGATGACAG
Seq A exon
CTGCCGCTCTCGTGGCCCAG
Seq C2 exon
GCTCATCATCCGTAATGGGGACAACGTGGAGGCCCCGCCCGTGTATGATTCCTACGAGGTGGAGTACCTGCCCATTGAGGGCCTGCTCAGCTCCAGCCGACACTTCTTCGTGGAGCTCAGTACTGACAGCAGTGGGGTGGCTGCGGGCATGGCCCTGCGCTACGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015979-9-10,9-9,9-8-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(49.5=94.7)
A:
NA
C2:
PF0043115=CUB=PD(49.5=94.7)
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:
TGAGAAGGTTTCCCTGGCTGA
R:
CCTCAATGGGCAGGTACTCCA
Band lengths:
113-133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development