GgaINT0095210 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:429804-430134:+
Coord C1 exon
chr2:429804-429883
Coord A exon
chr2:429884-429964
Coord C2 exon
chr2:429965-430134
Length
81 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GGGTGGTGTCCCCATGGCAGCAC
3' ss Score
4.16
Exon sequences
Seq C1 exon
CTCCCGACTGTGCCGCAGTGCCAGGGTCGGTGTTCAGCCACTGCGGGCCCCCCTGTCCCCGCTCCTGCGATGACATCTCG
Seq A exon
GTGAGTGGTGACCCCTCATTTTCCCCATCCCATCCCCTCGTCACATCCCCAGCACTCACCAGGGTGGTGTCCCCATGGCAG
Seq C2 exon
CACTGCGTATGGCACTGCCAGCCTGGCTGTTACTGCACCAACGGCACGCTGCTGGATGCAACGGGCACGGCGTGCGTGGCCCTGGAGAACTGCACCTGCCTGGATGCGCACAGCGGGCAGCGGCATCAGCCCGGGCAGAGCGTGCCACGTGGCGATGGCTGCAACAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:67
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF0182612=TIL=PU(41.8=85.2)
A:
NA
C2:
PF0182612=TIL=PD(54.5=52.6),PF053758=Pacifastin_I=PU(42.4=24.6)
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:
TGCCAGGGTCGGTGTTCA
R:
CATCCAGGCAGGTGCAGTTC
Band lengths:
168-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]