GgaINT1026442 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:411181-411512:+
Coord C1 exon
chr2:411181-411319
Coord A exon
chr2:411320-411385
Coord C2 exon
chr2:411386-411512
Length
66 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
AGAGTGCTCCCTGCCCACAGGAC
3' ss Score
9.11
Exon sequences
Seq C1 exon
CACGTGCCGGGGGGGCCGCTGGCTCTGCACCCAGGACCGGTGTGCGGCGGAGTGCGCAGTGCTGGGGGATCTGCACTACATCACCTTCGACCGCCGACGCTTCTCCTTCCCTGGTGCTTGCGAGTACACCCTGGTGCAG
Seq A exon
GTATGGGGGTGCTGGGCTGGGGGCTGTGGTGGGGTACCTGGGGATCAGAGTGCTCCCTGCCCACAG
Seq C2 exon
GACTTTGTGGAGGGGACGCTGCGGATCACGGTGGAGCAGGAGGCATGCGGTGGCCACCAGCCCCTCAGCTGTCTCCGGGCGCTCTCCATCACAGTGCCGGGAACCTCAGCCCGGCTGCACAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(65.6=85.1),PF053758=Pacifastin_I=PD(59.4=40.4),PF0009420=VWD=PU(18.5=59.6)
A:
NA
C2:
PF0009420=VWD=FE(27.8=100)
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:
CACTACATCACCTTCGACCGC
R:
GTTCCCGGCACTGTGATGG
Band lengths:
170-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]