GgaINT1026460 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:421191-421659:+
Coord C1 exon
chr2:421191-421301
Coord A exon
chr2:421302-421440
Coord C2 exon
chr2:421441-421659
Length
139 bp
Sequences
Splice sites
5' ss Seq
GCGGTATGA
5' ss Score
7.46
3' ss Seq
CCCACTCCCTCTGCCCACAGACC
3' ss Score
12.61
Exon sequences
Seq C1 exon
GTGACAATGTGACGGCCATCCCCACGGCACTGACAATGGAGCCCCCCAGCACCATGCCAGGAGAGCCCTCTGACAGCCCACTGCCCATGTTCCCGCTGCCTTCCCCAGGCG
Seq A exon
GTATGAGAGCTCTGCTCACAGTGTGCTGTGTCCCCACACCTCCTCCCTCTCCTGGGGACAGGACCCTGTGGGGTCACCCCCTCCCTGCAGGGGGAAAGAGCCAGCTCCATGCCTCCAAACCCACTCCCTCTGCCCACAG
Seq C2 exon
ACCCCTGCTACAGCCCCTTGGGCATCGCCTCCTTGCCCGATAGCAGCTTCACCGCCTCAGCCGAGCAGCAGCAGCACCCAGCCCGTGCTGCTCGTCTGCACCACGTCTCCCCGGGGCTGGAGTTGCAGGGCTGGGCCCCCCCAGCTGACACCGTCCCTGGTCTGCCTTCCCACCTACCCTTCCTGCAGCTGGACCTGCTGCAGACCACCAACCTCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.684 A=NA C2=0.324
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075420=F5_F8_type_C=PU(43.6=78.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGAGAGCCCTCTGACAG
R:
TCCAGCTGCAGGAAGGGTAG
Band lengths:
248-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]