HsaINT0159546 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149515741-149516604:+
Coord C1 exon
chr7:149515741-149515896
Coord A exon
chr7:149515897-149516394
Coord C2 exon
chr7:149516395-149516604
Length
498 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
AGCTCCGCTTTGTGTCACAGAGC
3' ss Score
7.38
Exon sequences
Seq C1 exon
GTGGCTGGGGCCCATGGTCCTCCTGGTCCCCCTGCTCCAGAAGCTGCACGGACCCCGCTCGCCCTGCATGGCGCAGCCGCACCCGCCTCTGCCTGGCTAACTGCACCATGGGGGACCCATTACAGGAGCGCCCCTGCAACCTGCCCTCATGCACAG
Seq A exon
GTGTGCCTTCCAGCCTCAACTTCTGATCCCAGCCACCACCCTCAGACAACTCATTGTAACCCCCAATTCCCAATATCTAATACCCCTCAGGTAATCATTGGTTTCTAGTGTTGACATCTCATTTCAAATCAGTGTCTGACTCCGGGCTCTGGATCCTCTTTGCCAACCCCAGCAGATGCTGGGGAGCCCAACTTCCAGCACATTCCTTGTTCTCTGGTGTGTGTGCTGAACTCTCCACCCGCCCCAAGGTCCCGCCCAAATCCCTCCATAGCCCTGTAGTCTGGGATTACTGTCCCTGATGAGAAAAGGGGATAGTGAGGCCCAGTTGTCAAAGCCACACAGCAGTCAGTGTCAGATCCAGAATGAGAGCCCAGAGCTCTGGACGAGGCCACTGCTGGCCTGGGTGGTGGAGGTCCACCGTTGAGCTGGGAGCAGAGAGGAAAGGCTGGGCAGGTGTCATGCAGCCGGGACTGGCTCCAGCTCCGCTTTGTGTCACAG
Seq C2 exon
AGCTGCCCGTGTGCCCTGGCCCTGGCTGTGGGGCTGGGAACTGTTCCTGGACCTCCTGGGCCCCGTGGGAACCTTGCTCCCGCAGCTGCGGAGTGGGCCAGCAGCGCCGCCTGCGGGCATACCGTCCCCCTGGGCCCGGCGGGCACTGGTGCCCCAACATCCTTACTGCCTACCAAGAGCGCCGCTTCTGCAACCTGCGAGCCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:78
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGTCCTCCTGGTCCCC
R:
GGCTCGCAGGTTGCAGAAG
Band lengths:
347-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)