HsaINT0159528 @ hg19
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin homolog (Bos taurus) [Source:HGNC Symbol;Acc:21998]
Coordinates
chr7:149506477-149508097:+
Coord C1 exon
chr7:149506477-149506622
Coord A exon
chr7:149506623-149508002
Coord C2 exon
chr7:149508003-149508097
Length
1380 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ATAGAGGGTTTCGATTCCAGAAC
3' ss Score
2.92
Exon sequences
Seq C1 exon
GGCCAGTGCCTGGCATGTGTCCCAGGGACAAGCAGTGGCTGGACTGTGCCCAGGGCCCTGCCTCTTGTGCAGAGCTCAGCGCCCCAAGAGGGACTAACCAGACCTGCCACCCTGGCTGCCACTGCCCCTCTGGGATGCTTCTGCTG
Seq A exon
GTGAGTGTCCCCCTGCCTGGCCCCAGAGAGGCCTCTGTACAGCCTGGGGACCATGGGGTGGCAGGGAAGGGACAGGCAGGATCTGGACAGCGAAGAACATAGGGTATGGGGCTAGAGACAGGGAGACCCTGCAAGGTTGAGGAAAGGGTACTAAACTCATGGGTTACAACTCAGCTCCGGCAGGAACCAGCAGGGGATCCTGGGCAGGTCTCATCCCTCTCCCCCTAATCTCTGTTTCCTCACTGGTAAAAATGGTGATAGGTCTAGAAGATCTTTGTGAATTGTCCCTGCTCAACTGCTCTGTCCACTATGTTATCACCAGTTATTTATCGAGCACCTACAGTATGTTAGTCTCTGGCTGAGCTATTCTGTAGGGAAGGAGTAGTCTCTGCCCTCAAGAAGCATCCAGTCTGGGGAAACCAGACCCAGAGTCCCTAAAATGAAGCTAGAACCATCAGACGGGCAGGAAGTGAGCTTTGCACATTGTGGAGTGGAGTGGAGTGGGCTGGGTCAGCCATGGAGGGCTCCCTGTAGGAGGTGATCCTGACTTGAATATCAGAGATTGGAGGGTGTGGAGAGTAGGGAGGCATGGAGGGCTTCCTGAAGGAGGGGGTCCTGCACTTGAAGATCCAAGATTGGAGAGCAGAGAGGTGGCCACTCTAGTCAGAGGGTGGTAGGAATTGGGGCTAGGAAATGCCGGCTGTGTGGTGGGATTGAACAAAGCCGTGGGGTGTGGTTAAGGGACACGTTGTAATCATATCTGAGTCCAAATCAGGCTCTTTTACTGGTAGCCCTGCGAGCTTGGGGATAGTATTCCCGTGCCTCAGTTCCTTCCTTTGTAAAATTGGGGTAAAATTACAGCCAGTCACAGGAGTCAGTGAGACGGTGCAGGGAAAGGGTTTCCCAGGCCCTGGCCCGTAAACTTCAGTGCGTTCGACTTTGAATCATGCGCCACAAGACAGTTGTTTCTTTTAAATCTGAAGGACTTCTGTCCAGATTCCCTGTGCACAATGTTTTTCTGTTTTTATTTTGTTGATGAAAATGTGTCTTTTCCTACCATTGCTGTACAAATTGCATATTTCATGTTTTCATGGCTGACTTCATGGGGATTCGACAGTTCAGTCTCATGTCCTGCAATTTTTAAGATGGTCTTTTTCTCCTAGAAATTGGAGGGTCCACGTCCCCACGTCCCCACGGCCCCCAAGCCGATGGTCCGCATTTGCCTGGCAGGAGGGCAGAGGGGAGAGCTGCATGTCTGTGGAAGGAGAGTGGCTGGGTTTTAAGGGGGAGCTTGAGGATTGCATGCTGGCTCTGACCAGGGTGGGGAGCCCAGGCCCAGCCCATCTGGAGCCAGAAGATGATAGAGGGTTTCGATTCCAG
Seq C2 exon
AACAACGTGTGTGTGCCCACCCAGGACTGCCCCTGTGCCCACGAGGGGCACCTCTACCCCCCGGGCAGCACTGTGGTTCGTCCATGTGAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558-SSPO:NM_198455:61
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGCCTGGCATGTGTCC
R:
CAGTTTTCACATGGACGAACC
Band lengths:
238-1618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)