HsaINT0155809 @ hg19
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:11137]
Coordinates
chr9:139278405-139279266:-
Coord C1 exon
chr9:139279172-139279266
Coord A exon
chr9:139278485-139279171
Coord C2 exon
chr9:139278405-139278484
Length
687 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
ATGGGGTTTGGCTTTTGCAGGTC
3' ss Score
8.39
Exon sequences
Seq C1 exon
GTATCTCAGGAGATTACATTTCAGCTTGAAAAAGGGTCGGTGGAATTTAAAAGAAGAGGAACAGTTAATTGAATTAATAGAAAAATATGGTGTCG
Seq A exon
GTAAGTTGCTGACAGTTTGTTCTTCTAGTTTCTTTTTTTTGTTTTTTGTTTCTTAGAAAAGAGATCAAGATAAAGACAGAGCAAGCTCTGTCGTCCAGGCTGGGGTGCGGTGGTGCGACCATAGCCCACTGCAGCCTCAAACTTTTGGGCTCAAGCCATCCTCCCGCCCCAGCCTCCCAAGTAGCTGGGACTGCAGGTGTGTGCCACCACACCCGACGAGCTGAGTGTTCTGTAGCGAAGTCTTTGCTTATATTTGCAATGTCCCCTTAGAGTAAATCCTAGCTGTGGTATTGCCACGTTCAAGGACACACCAGATACTGTGGCTCTGCCCTGTGAGAGCAGCACCCGTGCTCCTCCTGCTGCCCCACACTGTGAAGAGCGGGAATCGTGGGAGGTGGCTGGTGCGGAAGCCTGGGGGGAGCAGATATGTGAGGGCCGTGGTGTGCGCTTAGGACGATTTTTCCTTCTCAGTTACATGTTTGGCAGAACTTTCCTAAGGGGCTGAGCATCCAATGAGAATCAGATGCTGCCAAATTGTAGGCACCCAACATGCTTGACCCCCCAGCGTGAGAGTGCACAGGAGGCTCCACTCTGATGGGGCCACGGCGAGTCTCCTGGGGAACAGCAAGCCTGTCCTGGGGAAGAATCTTTGGATGAAGGCATTTCCATGGGGTTTGGCTTTTGCAG
Seq C2 exon
GTCACTGGGCAAAAATAGCTTCTGAGCTGCCCCATCGGTCTGGCTCCCAGTGTCTGAGCAAGTGGAAGATCATGATGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684-SNAPC4:NM_003086:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PD(36.1=66.7),PF150891=DUF4552=PU(23.7=81.8)
A:
NA
C2:
PF150891=DUF4552=FE(22.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)