HsaINT0159537 @ hg38
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr7:149778781-149779107:+
Coord C1 exon
chr7:149778781-149778939
Coord A exon
chr7:149778940-149779027
Coord C2 exon
chr7:149779028-149779107
Length
88 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CCTGCCTCACCCCTTCTCAGATG
3' ss Score
8.9
Exon sequences
Seq C1 exon
GGCTGAGCCTGCAATGGCTGGGGGACTGGCTGGTGCTGTCAGGAGGCCTGGGGGTCGTGGTGCGGCTGGACAGGACTGGCTCCATCTCCATCTCTGTGGACCACGAGCTCTGGGGACAGACACAAGGCCTCTGTGGGCTCTACAATGGCTGGCCAGAGG
Seq A exon
GTAAGTGGGGTGTGGTTTGTTGCTGGTGTAGCAGGGAAGGGAAGACCGGAGACCCTAGACCCAGCACCCCTGCCTCACCCCTTCTCAG
Seq C2 exon
ATGACTTCATGGAGCCAGGCGGAGGGCTGGCCATGTTAGCAGCCACCTTTGGAAATTCCTGGAGGCTCCCTGGCTCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558:ENST00000378016:7
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGACAGGACTGGCTCCATC
R:
CCAGGGAGCCTCCAGGAATTT
Band lengths:
167-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains