GgaINT1026450 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:416158-416497:+
Coord C1 exon
chr2:416158-416267
Coord A exon
chr2:416268-416459
Coord C2 exon
chr2:416460-416497
Length
192 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
AACACCCTGTGCCTCTGCAGCCA
3' ss Score
8.03
Exon sequences
Seq C1 exon
CTGTGACTCCGGGGGGGACTGCGAGTGTCTGTGCACAGCCATCGCCACCTATGCTGAGGAGTGCAGCCAGCGCGGCATCCACATCCGCTGGAGGAGCCAGGACCTGTGCC
Seq A exon
GTGAGTTCTCATCCACAGCGCCTGGGTTGTGCTGGGGGTTCTGGGGTGGGGTCCGGGATGAGGTCTGGCGTGTATGTTCCAGGATGGGGTCCTGGATGTGGGGTCCATGATGGGATCTGGGCTGGGATCCAGGCTGTGCAGGCTCACCCCAGGGCTGGCACAATGTGACCTCAACACCCTGTGCCTCTGCAG
Seq C2 exon
CCATGCAGTGCGATGGGGGGCAGGAGTATAGTGCCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:25
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:
PF087426=C8=FE(49.3=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(16.1=69.2)
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:
GACTGCGAGTGTCTGTGCAC
R:
CAGGCACTATACTCCTGCCCC
Band lengths:
131-323
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]