GgaINT1026467 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:408250-408691:+
Coord C1 exon
chr2:408250-408420
Coord A exon
chr2:408421-408491
Coord C2 exon
chr2:408492-408691
Length
71 bp
Sequences
Splice sites
5' ss Seq
CCGGTGGGT
5' ss Score
7.85
3' ss Seq
CACTCACCCCCCCACTGCAGGCG
3' ss Score
7.78
Exon sequences
Seq C1 exon
TGGAGGGCTCGCTGGGACAATGCCATGCCAGCTGGCAGTGCCAGGACGCAGTGGGTGCCCACAACCTCTCCACCGTGAGCATGGCCGAGTGCTGCCGCCAGCCCTGGGGGCACAGCTGGAGGAACGGCTCCTCTGCGCTCTGCTTCGCCTGCAGCCGGCAGCCCCTCACCG
Seq A exon
GTGGGTGCAGAGCACTGGGGTGTGGGGTGTCACTGGGTGCCCACTGAGCAGCACTCACCCCCCCACTGCAG
Seq C2 exon
GCGATGTACCCCTGCCCACAGCACCGCGGGGTCCTGCCGCCCGGCACCGCGGTCCCACTGCCAGCTGCACCGTATGGGCCGGATCCCGGTACCGCAGCTTCGATGGGCGGCACTTTGGCTTCCAGGGCGAGTGTGCCTACAGCCTGGCCGCCTCCACTGACAGCACCTGGGCTGTCAGCATCACCCCAGGCAGCCTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:5
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=0.149
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009420=VWD=PU(31.2=65.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGACAATGCCATGCCAG
R:
CTGTGGGCAGGGGTACATCG
Band lengths:
181-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]