HsaINT0159503 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149491882-149492517:+
Coord C1 exon
chr7:149491882-149491986
Coord A exon
chr7:149491987-149492298
Coord C2 exon
chr7:149492299-149492517
Length
312 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TCTCTCTCTTCTGCACCCAGACC
3' ss Score
9.13
Exon sequences
Seq C1 exon
GAGAGAACCAGACGGTCCAGCCCATGGCCACTCCTGCCGCAGCTCCGGCTCCCAGTCCCCAGATCAGATTCCCTTTGGCCACTTACATTCTGCCTCCGTCAGGAG
Seq A exon
GTAAGGGCCATGTGCTATGGAGTGCAGTGCTGAGAGGGGCCATGCTGCCCAGGGGTTGTCCAACCTGGGAGGGGAAACAGGCCCTCGGGGACATCCTCCTTGCCCTGCACACTGTGGATGGTTGTCCTAAGGATCTGGGAGTCATCCTATCTTAAGTTGCCTCTCTTGACTCTTCCCTCCCTGGGCTAAAGTCACCCATGTGGACGTTTCACATCCCCTAGCTCCCCATGCGACTTCCTAACCGTGTCCCTGCAGGCTCCTGCCGCCCTCTGTCCTCCCCTACTCCAGCCTGTCTCTCTCTTCTGCACCCAG
Seq C2 exon
ACCCCTGCTATTCTCCCCTGGGGCTGGCCGGACTGGCTGAGGGGAGTCTGCATGCATCGTCCCAGCAGCTGGAACACCCCACCCAGGCTGCCCTCCTGGGGGCTCCCACCCAGGGGCCCAGCCCTCAGGGATGGCACGCTGGAGGGGATGCTTATGCCAAGTGGCACACTCGGCCCCATTACCTGCAGCTGGACCTGCTTCAGCCTCGGAACCTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:39
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.387
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGACGGTCCAGCCCA
R:
CAGTGAGGTTCCGAGGCTGAA
Band lengths:
318-630
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)