GgaINT1026039 @ galGal4
Intron Retention
Gene
ENSGALG00000006039 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr9:4406545-4406884:+
Coord C1 exon
chr9:4406545-4406625
Coord A exon
chr9:4406626-4406846
Coord C2 exon
chr9:4406847-4406884
Length
221 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTTCCTTCCTTCTCTTCCAGAAA
3' ss Score
12.95
Exon sequences
Seq C1 exon
GTACAGGAGAGTATACAAGGTACACCAGGATGTATGCTACAAGGAGAGCTGTGAGAGCACCGGTTCCAAGAAAACCAGCAG
Seq A exon
GTACAGCCAACAGAAATGTTGCCCTCCCTCTGCTTGGGGGCCAGAATGTGGGCCCTGGGGTGCTGGGACCAGGGTGGGCAGGGAGGGGTGCAGGGCAGCATGCGAGGGATGTGCACGGTCACTGCAGCTCCTCTACCTCAAGGCTGCAAGGTTAGCGCCTTGTGGGAGCAGTGGGTGAGGTGCTGTGGGACTGATGGGTCTTTTCCTTCCTTCTCTTCCAG
Seq C2 exon
AAAACGAAGCGACAGTCACACACTGAAGAAGCCATAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006039:ENSGALT00000009725:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.917
Domain overlap (PFAM):
C1:
PF055076=MAGP=PD(31.2=89.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]