HsaINT0155813 @ hg19
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:11137]
Coordinates
chr9:139275774-139276525:-
Coord C1 exon
chr9:139276276-139276525
Coord A exon
chr9:139275845-139276275
Coord C2 exon
chr9:139275774-139275844
Length
431 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TTATCCCCCTGTGCCCGCAGCGG
3' ss Score
10.76
Exon sequences
Seq C1 exon
AAAGAGCAGCTGAGGCAGCCACCCCTGCCCACCTCATCCCCAGGGGTCAGCTCTGGTGACAGCGTGGCCCGATCCCATGTGCAGTGGCTACGGCACAGAGCCACCCAGAGTGGGCAGCGGCGCTGGAGACACGCTCTGCACCGGAGGCTCCTGAACCGCAGGCTGCTGCTGGCTGTGACCCCTTGGGTAGGGGACGTTGTCGTGCCCTGCACACAGGCTTCCCAGAGACCCGCCGTAGTGCAGACTCAAG
Seq A exon
GTATGGCCTGGGGCTCCTCTGGGAGCATCCTGGGGGCGAGGGGTGAGGATGAAGAGTACATCCAGCCTAGCAGACGGTGGCTACTTGGGGAAGTGGCCTCAGCAGGGGAGTCTTTTTGGGGTGGGCGCCACCTCTGGTCAGCTTCCCGTCCCTGAAGGTTTCCAGGACACCCAGTCACAGCCAGCCCTCCCTCCCTACCCCACCACTCTTCCTGGGCCAAGCATGTGGCAGCTTGGTGGTGACAGGGCTCACAGGGCCCACCCTTGTCCAGGCGTGGCTGTGGGGTGCTGGTTCCAAGGCCTCCCCTCCCACCCTGGCCTGGCTCCCAGAGCCGCCTCGAAAGGCACGTGGGAGCTGGGGCTGCTTTCCACCCATCCCCCTGTGCCCATGGGAGCTGGGGCTGCTTTCCACTTATCCCCCTGTGCCCGCAG
Seq C2 exon
CGGATGGCCTCAGGGAGCAGCTGCAGCAGGCCCGCCTGGCCAGCACCCCTGTGTTTACCCTGTTTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684-SNAPC4:NM_003086:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.548 A=NA C2=0.250
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAGCAGCTGAGGCAG
R:
GGTAAACAGGGTAAACACAGGGG
Band lengths:
318-749
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)