HsaINT0155812 @ hg38
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136381824-136382336:-
Coord C1 exon
chr9:136382253-136382336
Coord A exon
chr9:136382074-136382252
Coord C2 exon
chr9:136381824-136382073
Length
179 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTGCTGCCTTCTCCTTACAGAAA
3' ss Score
11.9
Exon sequences
Seq C1 exon
GGTGGGAGGCGTCTGCTGACAGTGCCTGTGGAGACCGTGCTGAGGGTGCTCAGGGCCAACACGGCTGCTCGGAGCTGCACACAG
Seq A exon
GTGAGGCCTGCTGCAGACACCCACGCGCACGCCACCACGTGCCCCGCCCTGGTCTGAGTGATTCCTCTCCCCGTCGATCATGCCCTGATGGGGGTGGAGGGCAGCACTGGCCACTGGGCAGGGTCCACTCCGGGGGCCGAGCCTGGCCATGGGCCCCAGGTGCTGCCTTCTCCTTACAG
Seq C2 exon
AAAGAGCAGCTGAGGCAGCCACCCCTGCCCACCTCATCCCCAGGGGTCAGCTCTGGTGACAGCGTGGCCCGATCCCATGTGCAGTGGCTACGGCACAGAGCCACCCAGAGTGGGCAGCGGCGCTGGAGACACGCTCTGCACCGGAGGCTCCTGAACCGCAGGCTGCTGCTGGCTGTGACCCCTTGGGTAGGGGACGTTGTCGTGCCCTGCACACAGGCTTCCCAGAGACCCGCCGTAGTGCAGACTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684:ENST00000298532:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.393 A=NA C2=0.548
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGAGACCGTGCTGAGG
R:
ACAACGTCCCCTACCCAAGG
Band lengths:
258-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains