GgaINT0095211 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:429965-430301:+
Coord C1 exon
chr2:429965-430134
Coord A exon
chr2:430135-430254
Coord C2 exon
chr2:430255-430301
Length
120 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCGCTGCTCTCTGCCCGCAGCAC
3' ss Score
10.98
Exon sequences
Seq C1 exon
CACTGCGTATGGCACTGCCAGCCTGGCTGTTACTGCACCAACGGCACGCTGCTGGATGCAACGGGCACGGCGTGCGTGGCCCTGGAGAACTGCACCTGCCTGGATGCGCACAGCGGGCAGCGGCATCAGCCCGGGCAGAGCGTGCCACGTGGCGATGGCTGCAACAACTG
Seq A exon
GTGAGTGGGGTGGGGTGAGGGCAATAGGGCATAGCATCCCCCCATCCCCACTGCCATCCCATCAGCAACCCCATCCTCATCTCATCCCCATCCCCACCCCTCGCTGCTCTCTGCCCGCAG
Seq C2 exon
CACCTGCACCCAGGGGAGACTGCTGTGCACTGGGCTGCCCTGCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:68
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.035 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0182612=TIL=PD(54.5=52.6),PF053758=Pacifastin_I=PU(42.4=24.6)
A:
NA
C2:
PF053758=Pacifastin_I=FE(48.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCTGTTACTGCACCAAC
R:
CAGCCCAGTGCACAGCAG
Band lengths:
186-306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]