HsaINT0159561 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149522054-149522480:+
Coord C1 exon
chr7:149522054-149522213
Coord A exon
chr7:149522214-149522368
Coord C2 exon
chr7:149522369-149522480
Length
155 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TCATCTGGTCGTCAGGTTAGAGC
3' ss Score
-0.81
Exon sequences
Seq C1 exon
ACTCATGCCAGTGGAGTCTGTGGGGGCCATGGAGCCCCTGCCAGGTGCCCTGCAGTGGGGGGTTCAGGCTACGCTGGAGAGAGGCAGAGGCCCTCTGTGGAGGAGGCTGCCGGGAGCCATGGGCTCAAGACAGAAAGCTGCAACGGAGGGCCCTGCCCAG
Seq A exon
GTAACTCCCATCCCCGATCCAGAGGAGAGCCTGGGACAGGAACATCTGAGACCAAACCTGAGGGGAGAGTTGGCTCTGCCCCAGAGCCGTGCAGTGGAAGCGGGGGCCCAAGAGCGTCCCCAACACAGACTCCTATCATCTGGTCGTCAGGTTAG
Seq C2 exon
AGCTGCGAGGCCCAAGACACTGTATTCACCCTGGACTGTGCCAACCAGTGCCCACACAGCTGTGCCGACCTCTGGGACCGCGTTCAGTGTCTGCAGGGACCCTGCCGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:91
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.171
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
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATGCCAGTGGAGTCTGTGG
R:
GTCCCTGCAGACACTGAACG
Band lengths:
258-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)