HsaALTA1042264-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136391942-136392594:-
Coord C1 exon
chr9:136392522-136392594
Coord A exon
chr9:136392107-136392212
Coord C2 exon
chr9:136391942-136392106
Length
106 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
AAGATTGCGCTTACTTGCAGCCG
3' ss Score
5.27
Exon sequences
Seq C1 exon
CCAGCTTCCAGAAGAGGCCTTGCTGGGAAACAGGCTGGACAGCCACGACTGGGAGAAGATTTCCAATATTAAC
Seq A exon
CCGTGGAAGCCTCCAGCTGGCGGAGAGCAACAGCTCAGCCTGGAGCTGCGTCTAGGGTGCCCCTGGGGTCAGTGGCCTGCAAGGCTGAGTGTCTCTGTCGGTGCAG
Seq C2 exon
TTTGAAGGCAGCCGCAGTGCAGAGGAGATCCGGAAGTTCTGGCAGAACTCGGAGCACCCCAGCATCAACAAGCAGGAGTGGAGCAGGGAGGAGGAGGAGCGGCTGCAGGCGATCGCGGCTGCACACGGCCACCTGGAGTGGCAGAAGATTGCAGAGGAGCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684-18-21,18-20-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.205
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=FE(34.8=100)
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PU(45.9=50.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCAGAAGAGGCCTTGCTG
R:
CCCCAGCTCCTCTGCAATCTT
Band lengths:
234-340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains