HsaINT0155810 @ hg38
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136383186-136384032:-
Coord C1 exon
chr9:136383953-136384032
Coord A exon
chr9:136383669-136383952
Coord C2 exon
chr9:136383186-136383668
Length
284 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
TAGCTCTTTCCTCCCCTCAGAAG
3' ss Score
7.41
Exon sequences
Seq C1 exon
GTCACTGGGCAAAAATAGCTTCTGAGCTGCCCCATCGGTCTGGCTCCCAGTGTCTGAGCAAGTGGAAGATCATGATGGGG
Seq A exon
GTGAGCCACTCGCTCCTTCTTTATCTGAAACCAGACAATGGCCTGGTCAACTGGGGGGTCCAGCAGGCAGGAGGAGGGGAGGGGAGGGGGGCGTTCGGTTTCTGGTCTTGGCATTTCTTCTTCTGGGTGGCCAAGGGCAAAGGGAGACCCTGCCTCGGCAGCGGCTGCTCTTGACCCCGGAGGCGCCCCCGCTTGGGCCTCTCCCCAAAGGGCTGGCCTGCTTGCTGCCATCATGGGTGAACCGGGCTTGCCAAGGCCTCTAAGTAGCTCTTTCCTCCCCTCAG
Seq C2 exon
AAGAAGCAGGGTCTCCGGAGGCGGCGGCGGAGGGCCCGTCACAGCGTCCGGTGGAGCTCTACCAGCAGCAGCGGCAGCAGCAGTGGCAGCAGTGGAGGGAGCAGCAGCAGCAGCAGCAGCAGCAGCGAGGAGGACGAGCCAGAGCAGGCGCAGGCCGGGGAGGGTGACAGAGCGCTGCTGTCCCCACAGTACATGGTCCCGGACATGGACCTGTGGGTTCCTGCCAGGCAGAGCACCAGCCAGCCATGGAGAGGAGGGGCAGGGGCCTGGCTGGGAGGCCCCGCTGCCTCCCTCAGCCCTCCCAAGGGGTCCAGTGCCAGCCAGGGCGGCAGCAAGGAAGCTTCCACCACAGCCGCGGCTCCTGGAGAGGAGACGAGTCCGGTGCAGGTCCCTGCCAGGGCCCACGGCCCTGTCCCGAGGTCTGCCCAGGCCTCCCACTCAGCAGACACTCGCCCGGCGGGCGCAGAGAAGCAGGCCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684:ENST00000298532:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.981
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCAGTGTCTGAGCAAGTG
R:
CTCCTCTCCATGGCTGGCT
Band lengths:
293-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains