GgaALTD0002372-1/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000006039 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr9:4393571-4394822:+
Coord C1 exon
chr9:4393571-4393656
Coord A exon
NA
Coord C2 exon
chr9:4394697-4394822
Length
0 bp
Sequences
Splice sites
5' ss Seq
AATGTGGGT
5' ss Score
2.76
3' ss Seq
GGGCGTGCGTGTCTCCGCAGCCT
3' ss Score
7.71
Exon sequences
Seq C1 exon
GTTTTAACGCCGGTGATGGAAAGCGCTACTTCAACATCCCCGGATCCCGCACTGACGACATCGCTGACGTGGAGATGACGACAAAT
Seq A exon
NA
Seq C2 exon
CCTCCGTGTGCCTGACGCTGCGGCCCTGCCTGAACGGGGGGAAGTGCATCGAGGACTGCATCACTGGGAACCCCTCCTACACCTGCTCGTGCCTCGCGGGCTTCACAGGGAAAAGGTGCCATGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006039-6-8,7-8-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF061199=NIDO=PD(47.3=78.2)
A:
NA
C2:
PF0000822=EGF=WD(100=83.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCAACATCCCCGGATCCC
R:
ACATGGCACCTTTTCCCTGTG
Band lengths:
183-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]