HsaINT0159512 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149497375-149499043:+
Coord C1 exon
chr7:149497375-149497518
Coord A exon
chr7:149497519-149498824
Coord C2 exon
chr7:149498825-149499043
Length
1306 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
GGGCTGAGTGTATCATTCAGCCA
3' ss Score
-0.64
Exon sequences
Seq C1 exon
GCCAGAGCGTCGCCCCAGGACCCTTCCCACCTGTGCAGTGTGGCCCCGGCCAGACGCCCTGTGAGGTGCTGGGCTGCGTGGAACAGGCGCAGGTGTGTGATGGCAGGGAGGATTGCCTCGACGGCTCCGACGAGAGGCACTGCG
Seq A exon
GTGAGCTGCTGGAGGGCCTGCTGTCCTGTGGGTAGGGGGTGGCACTTATCCTTCAGTGTAGGAAAGTGTCTGCCCTCATTTGTAGCTCATATTGGAAAGGATCTGGGGGAGGCTTGGGCAGCAGGGAATGGAGAAAATGGGTAAAAACAGGAGTGTGTGTGTCTTTGGGGGTGGTCAAGACCGGGAATAGGATAGGCCTTGGGTCTCAGCCTATTTTATAAAACCTGTTTGACCTTTGAAGAGACTCATCTACTCACTCACCCATCCAACATTCTACCTATCCCTCTATCTATCCATCCATCAACCACCCATCCATCCGTCTACCCATCCTCCCATCCACTAATCCACCCACTCACCCACCCATCCATCCATCCACCCACCCACCCACACTCCCACCCCCCACCCCCCACCCCCCACCCCTCTATCCATGTATTCATCAGCCACCTATCAACCATCTGTCTACTCACAAATCTATCCATCAATCCATCCACCCATCCAGCCAGCCACCATGCATCTATCTACCCATCCATCCATCTATTCACCCGTCCATCCATCAATCCATCCATCCATCTCAATCCACCTACCTACCCCTCTATCCATGTACTCATCAGCCACCCATCCATCCATCCATCCACCCACCCATCCATCCACCCATCCATCCATTCATCTATCCACCGACCCCTCTATCCATTCATCTATCAGCCACCCATCCATCCACCCATCCATTCATCCATCCATCCGACACCCACCCATGCATCTATCAGCCACCCATCCATCCACCCATGGATTCATCTACCCACCCCTCTATTCATCCATTCATCAGCTACCCATGCATCCACCTACTCACTCATCTACCCATCCATCCATCCACCCATCCATCCATTCACTCACCTACCCATACACCCATCCATGCATGCATTCATCCACCTATCTATCCACCCATCTATCCATCTACCCACCCATATATCCATCCATTCATTTATTCATCCATCCATCCATGCAAAGTAGATCACTATGATCAAAGCTTAGTCTTCCAATCATGACCAAAGAAATCCAATGTTAATCAGTCACAAGAAGAGCCACCCCAGGGAGTATGCATTCAGGAATAAGGTACCTAAGCATCTAGAATCTCTGTGTGAGAGCTTGTGTAGACCCAAGACTCCATGATCTCACCAACACATAGTGGAAGGAAGCCTGCTCTGGGCATGGGATGCAGGAGGCATCAGGAGGAAGGGGAGGCCAGGGGCTCCAGTCAGCAAGCTCACTTTGGCTCTTGGCTTGAGAAGGGGCTGAGTGTATCATTCAG
Seq C2 exon
CCAGGAATCTACTTATGTGGCTCCCTTCTCTCCCTGCCTTGTGGGCAGCGAGCACTGTGCCCTTCATGATGCCTACCATGGCCCTGCCTGGGCTTCCAGCCTCAAGGGCCCTCTGTTCCCCGAGCCAGCTGAGCTGTGGCAGCGGGGAGTGTCTGTCTGCTGAGCGGCGCTGTGACCTGCGGCCTGACTGCCAGGATGGCTCGGACGAGGATGGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:47
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.418 A=NA C2=0.004
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:
CAGGACCCTTCCCACCTGTG
R:
ACAGCCATCCTCGTCCGAG
Band lengths:
347-1653
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)