HsaINT0159525 @ hg38
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr7:149808484-149809124:+
Coord C1 exon
chr7:149808484-149808654
Coord A exon
chr7:149808655-149809041
Coord C2 exon
chr7:149809042-149809124
Length
387 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GACCTGGGCACCACCCCCAGGTC
3' ss Score
5.43
Exon sequences
Seq C1 exon
TGGCCTGTGGCTGGAGTCCCTGGACCCTGTGGAGTCTCTGTAGCTGCAGCTGCAACGTGGGCATTCGGCGCCGCTTCCGGGCAGGCACTGCACCCCCAGCTGCCTTTGGGGGTGCTGAGTGCCAAGGCCCCACCATGGAGGCTGAATTCTGCAGCCTGCGGCCATGTCCAG
Seq A exon
GTGAGAGCTGGGACTGAGGTCCTGAGACCTCCTTAACCTTCCAGAGAGAAGCCAAGAAGACTCCCATCACCCCCCACCCTGAACCTCTAGAAAAGTGCAAGAGACTTCATTAAGAGATGCTGCTAAGAGGTTGTCCCCAGAGACTCCTTGAGGGTCCATTCCCTAACAGGGCCCCTCCTCAGAATAGCCCCAGCTTCTCCCTAGAGACCAGCCCAGTTCTAGGCTGAATCCTGGAGCCCCCCACAAGCAGGTGTGAGGCACCTTAAGTGGGATATGACGCTGCAGGTGAAGCGGTGGAGGGGTCCCCAGGGGTGTCTGGGTGGGAGGAGGAGAAGGTGGGGTGGGCATGGGAGGCAGGGCCTGCAGTGACCTGGGCACCACCCCCAG
Seq C2 exon
GTCCTGGTGGGGAGTGGGGCCCTTGGTCTCCGTGCTCCGTGCCCTGTGGTGGTGGCTACAGGAACCGCACCCGAGGCAGCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558:ENST00000378016:61
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGGCTGGAGTCCCTG
R:
GTGCGGTTCCTGTAGCCAC
Band lengths:
238-625
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains