HsaALTA1042271-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136376349-136379299:-
Coord C1 exon
chr9:136377543-136379299
Coord A exon
chr9:136376472-136376481
Coord C2 exon
chr9:136376349-136376471
Length
10 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTGCCTGGATTTTCTTTCAGGGA
3' ss Score
9.51
Exon sequences
Seq C1 exon
CTGGGCCTGAGAAGGGGGCCCTGGACCTGGGCCTGCTGTCCCAGGAGGGCGAGGCGGCCACACAGCAGTGGCTGGGGGGCCAGCGGGGGGTGCGTGTGCCTCTTCTGGGCAGCAGACTGCCCTATCAGCCCCCAGCCCTGTGCAGCCTGCGAGCTCTGTCCGGTCTCCTACTCCACAAGAAGGCCCTGGAGCACAAGGCCACCTCCCTGGTGGTGGGGGGCGAGGCTGAGCGGCCGGCCGGAGCACTGCAAGCCTCACTGGGGCTGGTGCGGGGGCAGCTCCAGGACAACCCGGCCTACCTCCTGTTGCGGGCGCGGTTCCTGGCAGCCTTCACCCTCCCTGCGCTCCTGGCCACCCTGGCCCCCCAAGGCGTCCGCACCACCCTCTCAGTACCTTCGAGGGTGGGCTCTGAGAGTGAGGATGAAGACCTCCTGAGTGAGCTGGAACTTGCAGACAGGGACGGGCAGCCGGGCTGCACGACAGCCACATGCCCCATTCAG
Seq A exon
GGAGCCCCAG
Seq C2 exon
ACTCTGGTAAATGCTCTGCTTCCTCCTGCCTGGATACTTCTAATGACCCTGACGACCTGGACGTGCTCAGAACCCGGCATGCCAGGCACACCCGGAAGCGGAGGCGGCTGGTGTGAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684-40-50,40-49-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.766 A=NA C2=0.488
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GACCTCCTGAGTGAGCTGGAA
R:
GCAGGAGGAAGCAGAGCATTT
Band lengths:
104-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains