HsaINT0159510 @ hg38
Intron Retention
Gene
ENSG00000197558 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr7:149798068-149800004:+
Coord C1 exon
chr7:149798068-149798125
Coord A exon
chr7:149798126-149799833
Coord C2 exon
chr7:149799834-149800004
Length
1708 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CCCTCTACCTACACCCACAGAGA
3' ss Score
8.17
Exon sequences
Seq C1 exon
GGCCTGGCAGAGACTGAGCACTGGCCCCCTGGGCAGGAATCCCCCACGTCCCCGACAG
Seq A exon
GTGTGTGCACAGACTCCAGGCCTCCTCCCCAAACTCTTGTCCCACCTGTTCTTCCAGAGCCAGGGGCCGTTACATCTCAGGGGTTCAAATCCCATGACCCCTGACTTCCCCACAACCAAGAGAGTCACGGGGTTGGCTCAGGGAGGAGACACTGGTCACTTTGGACATGGCCAGGTCCTGCCCCTGCCCACCCCCTGGGATTCCAAGGTATGTGGCTGTAGGTTGGCGGGGCAGGTAGCTCCAGGCCAGCTCCCAGGACTGAGCCTGTGCCCTGTAATGTGGCTGCCTCTCCAGATGCCTGGTCAGGACAGGTCTCCCCCATGGGGGTGGGAGGCCACTTGGCTCCAGCCTGCACTCTCTCTGCTCACCATCCATGGAGCCAGGCCCCCCTTTCTGAAGCGTTTGCTGGCATCAAATGTCTCTTAAGTGGGCACGGGGGTTGGATGTGGTCACCAAGTTGGCATGCTCCTATATAAGGAAGGAAGAGGCTCTGCCTGGTTGTGAACCGGCCTCCCTGGAGCTACCTGATTATTCACCTGTGTGCTAGCCAGCAGAGAGCTGCCTCCTGGAGGGCCTGCTGTCCTGCGGGGATGAGGGGGTGGTAAGAGGGCTTTTGGTGTGGGTGAATTCTTGCCCTCATTTCTAGCCCCTATGGGAGGGATCTGGGTGAGGCTTGGGGCAGCAGGGGCTGGAGAGGAAGGAGGGTGAGGGCACCAGGTCTGCTCTTTCATTCTGGCTCATCCTCCCCTGGGCCTCAGCTTTTCCCCATCTGTGACACTAGGAGGCCTTATAGACAACTGTGGCCCCTCCCTGTGAGTTCTGATGGAAGTTATTCAGAACCTGGCCGGACTGTTTCTGTGTCTTTTGTGAAAAGCAGACAAAGCAATTGATGCCACCCCTCAGATCCATAACATGCAGACCCATGGGATACATTATAATTTCATTCTCAGTCTGGTTAAAAAAAAAAAAAAAAGGCTGTCTTTGAATGCATCTCTTGCCAGAAAATGAGACTTTTAACCCTTTTCACTGTAGCTGCCAGGAAGCCCAAAATCAGTTTGTTGTTGTTGTTGTTGTTGTTGTTGTTTGTTTACAACAGAAACAATGAACTCACCCTGGGTCTCTGGTAGTGTTTACTCCCTCTGCTGCTGTGTTAAAATGACCTCAGTTCTTTGTCTCCCTAAATATCGTATTTTATGGTGAGTTTGAACTTGAAAGTTGCCATGTGTTTCTTCTTGGGAATAGAATAAAAATCTCAGATCAAAACAAGTCTTCTACTTTCAGCCAAAGCCCTTCCTGTGCTCCTTGGATTTTTTTGATGCAAGGCCTCTCAGAAGGCATCAATTGCTTTGTCTGCTTTTCACAAAAGACACAGAAACAGTCCGGCCAGGTTCTGAATAACCTCCATCAGAACTCACAGGGAGGGGCCACAGTTGTCTATAAGGCCTCCTAGTGTCACAGATGGGGAAAAGCTGAGGCCCAGGCAGGTGGCACGGTGAGGCCCAGGGGAGGATGAGCCAGAATGAAAGAGCAGCCCTGGCACCCTCACCCTCCTTTCTCTCCAGCCCCTGCTGCCCCAAGCCTGGTCCGCAGCACCTGTGATTTACTCTGCACCACCCAGAAGCCTGGGATACCCTCTCGAGGGCCCCCACCTTCCTTTCCTGGGAAGGGGAGCTGGGCAAGCCTCACCTCCCTCTACCTACACCCACAG
Seq C2 exon
AGACAAGGCCCGTGAGTCCTGGCCCAGCCTCCGGGGTGCCTCACCATGGGGAATCTGTGCAGATGGTGACCACCACCCCCATACCCCAGATGGAGGCCAGGACCCTGCCACCAGGTATGGCAGCTGTGACGGTGGTGCCCCCACACCCTGTGACTCCAGCGACCCCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197558:ENST00000378016:46
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCAGAGACTGAGCACT
R:
AGGGGTCGCTGGAGTCAC
Band lengths:
223-1931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains