GgaINT1026439 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:409627-409981:+
Coord C1 exon
chr2:409627-409749
Coord A exon
chr2:409750-409818
Coord C2 exon
chr2:409819-409981
Length
69 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
GACGGTCCATCCCACACCAGGTC
3' ss Score
6.8
Exon sequences
Seq C1 exon
CTCTCCTGCAGTGATGCAGTGGAGCCCAGTCCTGGCTGTGCCATGGGCAGCACAGCACAGCGGGCAGCCGAGGCCATGTGTGGGATGCTGCTCACCGACCCCTTCCGCCAGTGCCACGAAGCA
Seq A exon
GTGAGTCCTGCAGCTCTGTGGGGTTGGGGTGCGTGGACCCTCATGCCCTGACGGTCCATCCCACACCAG
Seq C2 exon
GTCGACCCCCATGGCTTTTACGAGGCCTGCCTGGAGCTGCACTGCAGGGAGGGGGGCACGGGGCCCTCACCACCCCCTGCTGTCTGTGACACATTGGCCACGTACGTGAGGGACTGTGCCCAGCGGAGAGCCTACATTGAGTGGCGCCGGCCGGGCCTCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF087426=C8=PU(27.3=51.2)
A:
NA
C2:
PF087426=C8=FE(70.1=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:
CATGTGTGGGATGCTGCTCAC
R:
CACAGTCCCTCACGTACGTG
Band lengths:
167-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]