HsaINT0159531 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149508999-149509524:+
Coord C1 exon
chr7:149508999-149509205
Coord A exon
chr7:149509206-149509353
Coord C2 exon
chr7:149509354-149509524
Length
148 bp
Sequences
Splice sites
5' ss Seq
ATCTTGAGT
5' ss Score
0.38
3' ss Seq
TTCCTCTGCTGTGTCCCCAGGAG
3' ss Score
10.44
Exon sequences
Seq C1 exon
GTGAGCCCACGTGGTCACCCTGGACCCCTTGGAGCCAGTGTTCAGCCTCCTGTGGCCCTGCCCGGTGCCATCGGCACCGGTTCTGTGCCAGGTCCCCCAGTGCAGTGCCATCCACCGTGGCTCCGCTGCCCCTGCCAGCCACCCCCACACCTCTCTGCTCAGGCCCCGAGGCTGAAGAGGAGCCATGTCTCCTGCAGGGGTGTGATC
Seq A exon
TTGAGTGCCTGCCTGCCCTGCCCGCCTGGACCCTCCTGGGGAGCCCAGGGTGGTGCCCACTGTACGCTGTGGATGCTGCTGCCTTGTACCAGCTGTGCCCTGGCCCCAGCCAAGCCCCTCCTCACTCCTTCCTCTGCTGTGTCCCCAG
Seq C2 exon
GAGCTGGGGGATGGGGTCCATGGGGGCCCTGGTCCCACTGTAGCCGGAGCTGTGGGGGAGGCCTGCGGAGCCGGACCCGGGCCTGTGACCAGCCCCCACCCCAGGGCCTGGGGGATTACTGCGAGGGGCCACGGGCACAGGGGGAGGTCTGCCAGGCTCTGCCCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:64
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.011
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:
CAGTGCAGTGCCATCCACC
R:
GTGGCCCCTCGCAGTAATC
Band lengths:
242-390
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)