HsaALTA1054125-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr7:149782182-149783022:+
Coord C1 exon
chr7:149782182-149782299
Coord A exon
chr7:149782780-149782846
Coord C2 exon
chr7:149782847-149783022
Length
67 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCC
5' ss Score
7.13
3' ss Seq
CTTTCTACTTCCCATCCAAGCTC
3' ss Score
5.15
Exon sequences
Seq C1 exon
GACTATGTGAAGGGACAGCTACTGATCCTACTGGAGCATGGGGCCTGCGACGCTGGGAGCTGCCTGCACGCCATCTCCGTCTCCCTGGAGGACACCCACATCCAGCTCAGGGACTCAG
Seq A exon
CTCCTTCCCTTATCGCAGCCCTATCCTTCCACGTGCCCCACCCCCACCATCAGACCCCCTGTTCCAG
Seq C2 exon
GAGCTGTGCTGGTCAATGGGCAGGATGTGGGCTTGCCCTGGATTGGCGCTGAGGGCCTCAGTGTGCGCCGAGCTTCCTCTGCCTTTCTGCTGCTGCGCTGGCCTGGGGCCCAGGTGCTCTGGGGACTGTCTGACCCTGTAGCCTACATCACCCTGGACCCCCGCCATGCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-16-19,16-18,16-17-3/3
Average complexity
Alt3
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
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
ACATCCAGCTCAGGGACTCAG
R:
GGGTGATGTAGGCTACAGGGT
Band lengths:
174-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains