GgaINT0095201 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:427329-427631:+
Coord C1 exon
chr2:427329-427375
Coord A exon
chr2:427376-427460
Coord C2 exon
chr2:427461-427631
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
GACTCCCCGTGTCTCACCAGTGC
3' ss Score
7.5
Exon sequences
Seq C1 exon
CACCTGTGTGGCCGGGCAGATGGTGTGCAGCACAGAGACCTGCCCAG
Seq A exon
GTAGCACTGAGCGGCAGCTGCAGGGAAGAGGGGGTCCTCCTGGTGCCAGGGGGGCTGGGTGCAGTGACTCCCCGTGTCTCACCAG
Seq C2 exon
TGCCCTGCACCTGGAGCAACTGGACGGCCTGGAGCACCTGCAGCCACAGCTGTGATGTGGGGATGAGACGGCGGTATCGGGTACCCATTATGCCCCCCCTGGCTGGGGGGGGTCCACCTTGCCAGGGACCCAGCATGGAGTTGGAGTTCTGCAGCCTGCAGCCCTGCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:60
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:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=87.9)
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:
GTGTGCAGCACAGAGACCTG
R:
GAACTCCAACTCCATGCTGGG
Band lengths:
174-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]