GgaALTA1030135-4/4 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000006039 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr9:4400414-4401109:+
Coord C1 exon
chr9:4400414-4400527
Coord A exon
chr9:4400964-4400998
Coord C2 exon
chr9:4400999-4401109
Length
35 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CAGCTCGCTGCCTGCTGCAGGTG
3' ss Score
6.03
Exon sequences
Seq C1 exon
AAGTTGATGAGTGCCAATCAGAGCCCTGTAAGAACGGTGGCACCTGCCGGGACCTCCTGGGCTCCTTTGCCTGCTCCTGTCCCGCGGGCTTCATGGGCACCCAGTGCGAAGAAG
Seq A exon
GTGCTTTACTTCCAGCCTGCTCTCTCCTGCAGAAG
Seq C2 exon
TGGACGCCTGTGAGTCAGACCCTTGTCAGAATGGAGGGGAGTGTGAAGGTGATGGAGGTTCCTACCTGTGTGTGTGCCCAGAGGGTTTCTTTGGTTACCACTGTGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006039-29-32,29-31,29-30,29-29-4/4
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:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0000822=EGF=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTAAGAACGGTGGCACCTG
R:
CCCCTCCATTCTGACAAGGGT
Band lengths:
128-163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]