GgaINT0095230 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:438960-439308:+
Coord C1 exon
chr2:438960-439121
Coord A exon
chr2:439122-439191
Coord C2 exon
chr2:439192-439308
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
CACCAGGCTGCCGTGCACAGGGG
3' ss Score
3.5
Exon sequences
Seq C1 exon
AGCTGTGCCTCTGGAGCCCCTGGGGGCCGTGGGGGCCCTGCCAGCAGCCCTGCAGTGGGAGTTTCCGCCTGCGGCACCGCCACCTCCAGCGCCTGGCGGGCAGCGGGCAGTGCCAGGGGGCACAAACCCAGAGCGAGAGCTGCAACACAGCCGTGTGCCCAG
Seq A exon
GTAACCCCCCATCCCCACCACCCTGGGACCCCCACCCAGACGGGGGCTGACACCAGGCTGCCGTGCACAG
Seq C2 exon
GGGAGGACTGTGAGAAGCAGGGAAGGGTATTCGCCACCACCTGCGCCAACAGCTGCCCCCGCGCCTGCGCCGACCTCTGGCAGCACGTGGAGTGCGTGCAGGGGGGCTGCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:90
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:
PF0009014=TSP_1=WD(100=87.3)
A:
NA
C2:
PF0182612=TIL=PU(63.2=90.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCTCTGGAGCCCCTG
R:
TCCCTGCTTCTCACAGTCCTC
Band lengths:
181-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]