HsaINT0159552 @ hg38
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr7:149821397-149821671:+
Coord C1 exon
chr7:149821397-149821549
Coord A exon
chr7:149821550-149821624
Coord C2 exon
chr7:149821625-149821671
Length
75 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
GAGTCCCGGCTCTTTCCCAGCTC
3' ss Score
2.96
Exon sequences
Seq C1 exon
GTCCTCCACGTCGGGCTCGTGGGCCCCAGAGTGTCGGGAGGAGCAGTCCCAGAGCCAGCCCTGCCCTCAGCCCTCGTGCCCACCCCTGTGCCTGCAGGGCACTCGCTCCCGCACCCTGGGGGACAGCTGGCTGCAGGGGGAGTGCCAGCGGTG
Seq A exon
GTGAGTGCAGGGCAGGGAGGGGGGCTGGAACCGCCCTGCTGGAGAGCAGAGTCCTGAGTCCCGGCTCTTTCCCAG
Seq C2 exon
CTCCTGCACCCCGGAGGGTGTGATCTGCGAAGATACGGAGTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558:ENST00000378016:86
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGTCGGGAGGAGCAGTC
R:
GCACACTCCGTATCTTCGCAG
Band lengths:
170-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains