GgaALTA0003113-2/2 @ galGal3
Alternative 3'ss
Gene
ENSGALG00000006039 | SNED1
Description
NA
Coordinates
chr9:5945032-5945875:+
Coord C1 exon
chr9:5945032-5945145
Coord A exon
chr9:5945579-5945812
Coord C2 exon
chr9:5945813-5945875
Length
234 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
CTTTTGCCCACACCCTGAAGAAT
3' ss Score
3.21
Exon sequences
Seq C1 exon
CCAGTGACCCGTGCTTCTCCAGCCCATGTGGGAGCCGAGGCTACTGCCTGCCCAGCAATGGCACCCACAGCTGCACCTGCAAAGTGAGCTACACAGGCAAGAGCTGCGAAAAAG
Seq A exon
AATTGCTGCCACCAACCTCATTAAAGGTGGAAAGGGTGGAGGACACTGGTGTGTTGATTTCTTGGCACCCTCCTGAGGACGCAGCCGCCAGGCAACTCATTGACGGCTACGCCGTGACGTACGTATCCTTCGACGGCTCTTACCGCAGGACAGATTTTGTGGACCGAAGTCGTTCTGCCCACCAATTGCGGGCACTAGCCTCCGGCAGAGCCTACAATATTTCTGTCTTTTCAG
Seq C2 exon
TCAAACGCAACGTGAACAACAAGAATGATATCAGCAGGCCTGTCATGCTCACCACGCGCACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006039-28-24,28-23-2/2
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=0.120
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0004116=fn3=WD(100=84.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGACCCGTGCTTCTC
R:
CGCGTGGTGAGCATGACAG
Band lengths:
172-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]