HsaINT0128796 @ hg19
Intron Retention
Gene
ENSG00000143442 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:18801]
Coordinates
chr1:151380576-151381057:-
Coord C1 exon
chr1:151380885-151381057
Coord A exon
chr1:151380717-151380884
Coord C2 exon
chr1:151380576-151380716
Length
168 bp
Sequences
Splice sites
5' ss Seq
AATGTCAGC
5' ss Score
-1.38
3' ss Seq
TTTTTTTTTTTCCCCCACAGGAG
3' ss Score
13.16
Exon sequences
Seq C1 exon
GTGACAATCCGGGCTTCCCGAGGGCAGCCACGAACTGTTCCTGTATCCTCTAATGATACACCTCCCAGCGCCTTGCAGGAGGCAGCACCGCTGACCTCCTCAATGGACCCTCTGCCTGTCTTCCTTTATCCCCCTGTCCAGCGCAGCATCCAGAAGAGAGCTGTTAGGAAAAT
Seq A exon
GTCAGCGCCTTCTTCTAAGTGCTGGGCGGGTGGGGACTGGGTGGCCAGGATTATTCCTGATACACAGTGCAATCTGGTAGCTTTTTAGCAGGGTTTGTTGTCTGAAAATCCTACATTTTGGGGACCCATGAGGCAGTAATGAGAATTCTTTTTTTTTTTCCCCCACAG
Seq C2 exon
GAGTGTCATGGGCCGGCAGACATGCCTGGAGTGCAGCTTCGAGATCCCAGACTTCCCTAATCATTTCCCTACTTACGTACACTGCTCTCTGTGTCGCTATAGCACCTGCTGTTCTCGAGCTTATGCCAACCACATGATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442-POGZ:NM_207171:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.534 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCACGAACTGTTCCTGTA
R:
GCGACACAGAGAGCAGTGTAC
Band lengths:
246-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)