GgaINT0095239 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:442050-442344:+
Coord C1 exon
chr2:442050-442110
Coord A exon
chr2:442111-442213
Coord C2 exon
chr2:442214-442344
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCTGTCCCCCCTCCCCGCAGAGG
3' ss Score
13.44
Exon sequences
Seq C1 exon
GGCGAGGTGAAGGTGCGGGAGCCAGGACGCTGCTGTCCCGTCTGCAGGATGGAGTGGCCAG
Seq A exon
GTAAGGGCCTCAAAGGGAACCCCCCTCTCCCTCTACCCCCTCTCCCGGGGACCCCCTGGAGCCACCCATGGGGGTGTCACTGCTCTGTCCCCCCTCCCCGCAG
Seq C2 exon
AGGAGCCGTCCTCCATGTGCCGGCGCTTCACCGAGCTGCGCAACATCACCAAGGGTCCCTGCTCACTGCCCAACGTGGAGGTCAGCTTCTGCAGCGGCCGCTGCCCATCCCGCACCGCCGTCACCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:101
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=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(25.0=66.7),PF053758=Pacifastin_I=PD(5.4=9.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGGTGAAGGTGCGGGAG
R:
CAGAAGCTGACCTCCACGTTG
Band lengths:
150-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]