HsaINT0159553 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149518714-149519286:+
Coord C1 exon
chr7:149518714-149518760
Coord A exon
chr7:149518761-149518950
Coord C2 exon
chr7:149518951-149519286
Length
190 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
TCACCTGTGCCCTCCCACAGTGC
3' ss Score
10.13
Exon sequences
Seq C1 exon
CTCCTGCACCCCGGAGGGTGTGATCTGCGAAGATACGGAGTGTGCAG
Seq A exon
GTCTGGGCTGCCTCCGGATCCCCGCCTCAGCCACCCTTCTAGCCTCATGCCTTGCCTGCCATGTGCTCTGTGTCTCATTTTCTCCCACCTTACTTAACTGCCACTCCCTTGGCCACCATGCAGGTCCCCACCCAGTCCTTTGGCCTTTGCTCCCTCCGCCTCCTCTGACCTCACCTGTGCCCTCCCACAG
Seq C2 exon
TGCCTGAGGCTTGGACGCTGTGGTCCTCCTGGTCCGACTGCCCTGTCTCCTGTGGAGGTGGAAACCAGGTCCGAACCCGGGCCTGCAGGGCCGCAGCCCCTCACCACAGGAGCCCACCCTGCCTGGGCCCTGACACCCAGACCAGGCAGCAGCCTTGCCCAGGGCTGCTGGAGGCCTGCTCCTGGGGCCCGTGGGGGCCCTGTTCCCGCAGCTGCGGCCCGGGCCTGGCCTCTCGCTCTGGGTCCTGCCCCTGCCTGATGGCCAAGGCCGACCCCACCTGCAACAGCACCTTCCTCCACCTGGACACCCAGGGCTGCTACTCAGGGCCCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:84
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.009
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAAGATACGGAGTGTGCAG
R:
GACCCAGAGCGAGAGGCC
Band lengths:
265-455
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
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)