HsaINT0159525 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149505572-149506260:+
Coord C1 exon
chr7:149505572-149505742
Coord A exon
chr7:149505743-149506129
Coord C2 exon
chr7:149506130-149506260
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
GTCCTGGTGGGGAGTGGGGCCCTTGGTCTCCGTGCTCCGTGCCCTGTGGTGGTGGCTACAGGAACCGCACCCGAGGCAGCAGCTGCGCAGCCTCATGGAGTTTTCCACCTGTGGCCTGCAGCCCTGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:59
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGGCTGGAGTCCCTG
R:
AGGTGGAAAACTCCATGAGGC
Band lengths:
278-665
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)