HsaINT0155820 @ hg38
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136395298-136395770:-
Coord C1 exon
chr9:136395603-136395770
Coord A exon
chr9:136395424-136395602
Coord C2 exon
chr9:136395298-136395423
Length
179 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CTGCCTTGTGTCTGTCACAGGAG
3' ss Score
10.09
Exon sequences
Seq C1 exon
GAAGAAGAAAGGTGGGGCGAAGCCAGCAATGACGAGGACGATCCCAAGGATAAAACCCTCCCTGAAGACCCAGAAACCTGCCTGCAGCTGAACATGGTCTACCAGGAGGTCATCCAGGAGAAGCTGGCTGAGGCCAACCTGCTGCTGGCCCAGAACCGGGAGCAGCAG
Seq A exon
GTGGGATGGGCCTCGGCCCCCCGGTGCCCACACCTCCCCACCCCCAGAGCCCCCCACAGCTGGGCCTCCCAGGTCCAGGGCTCCCCAGCTCCCTGCCTCTCCTCTGCCCCGGGTCTCCTCCGCAGGGAGAGTCATTGCTGCTGGTCCATAGAGGGGTCCCTGCCTTGTGTCTGTCACAG
Seq C2 exon
GAGGAACTCATGAGGGATCTGGCTGGGTCCAAAGGCACCAAGGTGAAAGATGGCAAAAGCCTGCCCCCAAGCACATACATGGGGCACTTCATGAAGCCGTATTTCAAGGACAAGGTCACGGGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684:ENST00000298532:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.748
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAATGACGAGGACGATCC
R:
GCTTCATGAAGTGCCCCATGT
Band lengths:
242-421
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