GgaINT0095186 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:421048-421301:+
Coord C1 exon
chr2:421048-421102
Coord A exon
chr2:421103-421190
Coord C2 exon
chr2:421191-421301
Length
88 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGC
5' ss Score
7.96
3' ss Seq
AGAGGTTGTCCATGCTGCAGGTG
3' ss Score
3.36
Exon sequences
Seq C1 exon
GGCCAGGTGCTGGTGGAGGGAAAGGGGGATTCCTGCTGCTTCTGTGCACAGATAG
Seq A exon
GTGAGCCCGGTGTTGGGATCTGGGGGGCACAGCCCTGCTGGGTGCCCGCTGGCACCTGGGTGCTGCACAGAGGTTGTCCATGCTGCAG
Seq C2 exon
GTGACAATGTGACGGCCATCCCCACGGCACTGACAATGGAGCCCCCCAGCACCATGCCAGGAGAGCCCTCTGACAGCCCACTGCCCATGTTCCCGCTGCCTTCCCCAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:41
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=0.684
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGTGCTGGTGGAGGGAAAG
R:
GAAGGCAGCGGGAACATGG
Band lengths:
154-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]