GgaINT0095171 @ galGal4
Intron Retention
Gene
ENSGALG00000004919 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr2:415076-415535:+
Coord C1 exon
chr2:415076-415332
Coord A exon
chr2:415333-415400
Coord C2 exon
chr2:415401-415535
Length
68 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGG
5' ss Score
5.5
3' ss Seq
CACGGTCCCACTGCCTGCAGGAA
3' ss Score
8.94
Exon sequences
Seq C1 exon
CGTGTGCCGCCAGCAGCGCTGGCAGTGCAGCAGCGAGGACTGCATGGGGACCTGTGTGGCCACGGGGGACCCCCACTACATCACCTTCGACGGGAGGGCCTTCTCCTTCCTGGGGGACTGCGAATATGTGCTGGTGCGTGAGGCCAATGGGCTCTTCACTGTCACCGCCGAGAACGTCCCCTGTGGCACCAGTGGCGTCACCTGCACCAAGTCTGTGGTGGTGGAGATGGGCAACACCGTGGTGCACATGCTGCGGG
Seq A exon
GTGAGGGCACGGGGACATGGGGGGACAGGGGCAAAAGGGGAGAGCACTCACGGTCCCACTGCCTGCAG
Seq C2 exon
GAAGGGATGTGACGGTGAATGGGGTCTCAGTGCGTCCCCCTAAAGTGTACAGTGGGAACGGGCTGACGCTGCAGCGCGCCGGCATCTTCCTGCTGCTGCTGTCCCGCCTGGGGCTGGCGGTGCTGTGGGACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000007871:21
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:
PF0009313=VWC=PD(62.5=40.2),PF0009420=VWD=PU(45.3=78.2)
A:
NA
C2:
PF0009420=VWD=FE(30.0=100)
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:
TTCCTGGGGGACTGCGAATAT
R:
GACCCCATTCACCGTCACATC
Band lengths:
177-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]