HsaALTA0006490-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000143442 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:18801]
Coordinates
chr1:151400299-151400889:-
Coord C1 exon
chr1:151400599-151400889
Coord A exon
chr1:151400491-151400517
Coord C2 exon
chr1:151400299-151400490
Length
27 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TTATCACTTGGTCACCGTAGCTC
3' ss Score
4.27
Exon sequences
Seq C1 exon
CCCCAGGTACCCAGTTTGTTAAGCCGACAGTTGGAGTTCCACAAGTGTTCTCCCAGATGACCCCTGTGAGGCCAGGCTCCACAATGCCTGTGAGGCCCACCACCAACACCTTCACCACCGTCATCCCGGCCACTCTTACCATTCGAAGCACCGTCCCACAGTCCCAGTCCCAGCAGACCAAGTCCACTCCCAGCACTTCTACCACTCCCACTGCCACACAGCCAACCTCACTGGGGCAACTAGCTGTTCAGTCTCCAGGCCAGTCAAACCAGACCACGAATCCCAAGCTAG
Seq A exon
CTCCCTCCTTCCCCTCTCCACCTGCAG
Seq C2 exon
TGAGCATTGCCAGCTTTGTCACTGTGAAGCGACCTGGTGTTACAGGCGAAAATAGCAATGAAGTGGCCAAATTGGTGAATACCCTTAACACCATCCCTTCCCTGGGCCAGAGTCCTGGGCCAGTGGTGGTGTCCAACAACAGCTCTGCTCATGGCTCTCAAAGAACCAGCGGACCTGAGTCTTCAATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442-14-12,14-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.910 A=NA C2=0.936
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAGCACTTCTACCACTCC
R:
TGACAAAGCTGGCAATGCTCA
Band lengths:
125-152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development
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)