HsaINT0159504 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149474273-149474942:+
Coord C1 exon
chr7:149474273-149474452
Coord A exon
chr7:149474453-149474697
Coord C2 exon
chr7:149474698-149474942
Length
245 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
AGTTGGTGTGTCTCTCCCAGGCA
3' ss Score
7.81
Exon sequences
Seq C1 exon
CCCTTGCCAAAGCCAGTCCTGAAGGCCACTGCTTTGCCATGTGGCAGTGCCAGCTACAGGCAGGCTCAGCTAATGCCTCAGCAGGAAGCCTGGAGGAGTGCTGCGCCCGGCCCTGGGGACAAAGCTGGTGGGATGGCAGCTCCCAGGCCTGCCGCAGCTGCTCCAGCCGACACCTGCCAG
Seq A exon
GTGGGTCCACAGACTCCAGCCTGCCAGACAGGCACAGTCCTGGCCATCACCCCTTCCGCCTCCCCAGGCACTCCCATGTGGAGTTCTTGTGCTCTGGGCCCTTCTACAGGGCCCATACTGGCTCCCTGGCCCACTAGAGTGACCATGTCCTGTCTGCCTGCCTCCCGCTGTGCCGGGAGCCCTGTGTCCTCACCCTTCACCTCTGCCTCACACTCAGAGGCTCACAGTTGGTGTGTCTCTCCCAG
Seq C2 exon
GCAGTGCCTCTTCTCCAGCCCTCCTGCAGCCCCTGGCAGGGGCTGTGGGCCAGCTCTGGAGCCAGCACCAGCGTCCCTCGGCCACCTGTGCCTCCTGGTCGGGCTTCCACTACCGCACCTTTGATGGCCGCCACTATCACTTCCTGGGCCGCTGCACCTACCTGCTGGCGGGTGCTGCGGACTCCACCTGGGCTGTCCACCTAACACCCGGGGACCGCTGCCCCCAGCCTGGACACTGTCAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCCAAAGCCAGTCCTGAAG
R:
CCATCAAAGGTGCGGTAGTGG
Band lengths:
304-549
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)