GgaINT0095236 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:440710-441338:+
Coord C1 exon
chr2:440710-440874
Coord A exon
chr2:440875-441129
Coord C2 exon
chr2:441130-441338
Length
255 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GCATCCCGTGCTGCTGGCAGCCT
3' ss Score
3.66
Exon sequences
Seq C1 exon
TGGATTGCCTGTGGTCTCCGTGGTCGCCCTGGTCCCCCTGCTCGGTGACGTGTGGGATGGGTGAGCGGCTCTCACACCGGCACCCACTGCGGCAGCGCCTCTATGAGGGGGCTGAGTGCCTGGGGCCCCCCGTGCGCCGGGCTGCCTGCCACCTCCCCGACTGCG
Seq A exon
GTGAGTGTCCCCAGAGTCCCCAGGTATGGCTGTGGTCTCATCAAGCTGCAGAGCAGAGCATGGAGCAGAGTGGGGGTGATGGGGCGGGTGGTGAGGGAAGGGGGCAAGCCGTCACAGTGGGATGCGGGGGCTCTGGGGCTGCACGAGCACGTGGGGGGGTTTGTCCCCCACCGCCACCAGCCCTGGCCACTTTGGTCCCTACATGCTGGGCTGCTGCATGGCCAGTGCTGGTGATGCATCCCGTGCTGCTGGCAG
Seq C2 exon
CCTGTCCGGAGGGGGAGCGCTGGCAGGGCCCTGAGGTGCCACCAGGCTGTGAGCAGAGCTGCAGGGACATCCTCGATGAGACCCCTGCAAACTGCACCCCTTCCCCCTCCCCCGGCTGCACCTGTGAGCCCGGCCACTACCGCAACAGCAGCGGCCACTGTGTGCCCTCCACCCTCTGTGAGTGCCTGCACCAGGGGCAGCTCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:98
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF053758=Pacifastin_I=PD(3.3=1.8),PF0009014=TSP_1=WD(100=89.3),PF0182612=TIL=PU(10.4=12.5)
A:
NA
C2:
PF0182612=TIL=PD(88.1=84.3),PF0009313=VWC=PU(14.3=11.4),PF053758=Pacifastin_I=PU(2.7=1.4)
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:
GATTGCCTGTGGTCTCCGTG
R:
TAGTGGCCGGGCTCACAG
Band lengths:
302-557
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]