GgaINT0095234 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:440138-440481:+
Coord C1 exon
chr2:440138-440265
Coord A exon
chr2:440266-440335
Coord C2 exon
chr2:440336-440481
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
AGGGTCCCCATCACCCGCAGGTG
3' ss Score
8.41
Exon sequences
Seq C1 exon
AGTGTCCCCGCAGCCAGGTGCACAGGGAGTGTGCCAACGCCTGTCCCCATGCCTGCGCCGACCTGCGTCCACAGACACAGTGCCTACCACAGCCCTGCCAGCCTGGTTGTGCCTGCCCGCCCGGACAG
Seq A exon
GTGGGGCTGTGGGGTTGCATGGGGCACGCTGGGGATGGGGCAGCAGCCTCAGGGTCCCCATCACCCGCAG
Seq C2 exon
GTGCTGCAGGATGGAGCCTGTGTGCCCCCCGAGGAGTGCCGCTGCACACTCGACTCCACCATGCCCGGAGTGCTCAACCTGTCACGGGAGGAGCAAGAGCAGGAGCACGCACCGGGCAGCCGCCTGCAGCACCGCTGCAACACGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:95
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=0.204
Domain overlap (PFAM):
C1:
PF0182612=TIL=PU(74.5=95.3)
A:
NA
C2:
PF0182612=TIL=PD(21.8=24.5),PF053758=Pacifastin_I=PU(40.0=24.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGACACAGTGCCTACCAC
R:
CGTGCTCCTGCTCTTGCTC
Band lengths:
168-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]