GgaINT0095189 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:423295-423673:+
Coord C1 exon
chr2:423295-423423
Coord A exon
chr2:423424-423502
Coord C2 exon
chr2:423503-423673
Length
79 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
CACAAGGGCCTTTCCCACAGGAG
3' ss Score
6.07
Exon sequences
Seq C1 exon
AGCCACCCCTGCCCCGGCTCCTGTGCCCCCCGGACCAGTTCCTCTGTGATGCCCTGGGCTGTGTGGATGCAGCCATGGTCTGTGATGGGCAGCAGGACTGCCTGGATGGCTCTGATGAGGCGCACTGCG
Seq A exon
GTGAGACCCCCATGATTCCCTGCCCCCACAGAGCCTGGGGTTGCTGAGCCCCAGCTCAACACAAGGGCCTTTCCCACAG
Seq C2 exon
GAGCCCTCCCCACCTCCGGCAGCTCCCCGTCACCCCTGGCCTGGCCCAGCGGTCCCTCACCCACCTGCTCCCCCAAGCAGTTCTCCTGCGGCACGGGTGAGTGCCTGGCCCTGGAGAAGCGCTGCGACCTGAGCCGTGACTGTGCTGATGGCTCCGATGAGAGCAGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.224
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=81.8)
A:
NA
C2:
PF0005713=Ldl_recept_a=PU(92.5=63.8)
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:
CAGTTCCTCTGTGATGCCCTG
R:
AGGAGAACTGCTTGGGGGAG
Band lengths:
181-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]