GgaINT1026449 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:414915-415332:+
Coord C1 exon
chr2:414915-415009
Coord A exon
chr2:415010-415075
Coord C2 exon
chr2:415076-415332
Length
66 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TGCTCAGCCCCATCCTGCAGCGT
3' ss Score
6.15
Exon sequences
Seq C1 exon
GACAAGCGCTGTGTGCCCCCGGAGGAGTGCCCTTGCCAGCACAACGGGCGGCTGTACCAGCCCAATGACACCATCGTCAGGGACTGCAACACCTG
Seq A exon
GTGAGCCTCGGCACGCACGGGCAGGGCGGTGCTGGCACAGCCCCGGTGCTCAGCCCCATCCTGCAG
Seq C2 exon
CGTGTGCCGCCAGCAGCGCTGGCAGTGCAGCAGCGAGGACTGCATGGGGACCTGTGTGGCCACGGGGGACCCCCACTACATCACCTTCGACGGGAGGGCCTTCTCCTTCCTGGGGGACTGCGAATATGTGCTGGTGCGTGAGGCCAATGGGCTCTTCACTGTCACCGCCGAGAACGTCCCCTGTGGCACCAGTGGCGTCACCTGCACCAAGTCTGTGGTGGTGGAGATGGGCAACACCGTGGTGCACATGCTGCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:20
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:
PF0182612=TIL=PD(17.6=28.1),PF0009313=VWC=PU(35.7=62.5)
A:
NA
C2:
PF0009313=VWC=PD(62.5=40.2),PF0009420=VWD=PU(45.3=78.2)
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:
CTGTACCAGCCCAATGACACC
R:
ATATTCGCAGTCCCCCAGGAA
Band lengths:
171-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]