HsaINT0128798 @ hg19
Intron Retention
Gene
ENSG00000143442 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:18801]
Coordinates
chr1:151379387-151379767:-
Coord C1 exon
chr1:151379711-151379767
Coord A exon
chr1:151379500-151379710
Coord C2 exon
chr1:151379387-151379499
Length
211 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GTCTCAATTCTCTTTTTTAGTGG
3' ss Score
8.75
Exon sequences
Seq C1 exon
CAATCATGTTCCACGGAAGAGCCCCAAGTATTTGGCTTTGTTTAAAAATTCTGTGAG
Seq A exon
GTAAGAAAAAACTTATTGGCAGCATCTTAATTTTTCAGGTTTTTACATTAATTTTCAGGTTTTTCATTATTTGGAGAGGTGGTTATGTGAATTAATTTCAGAAAAAGGAGAAAGTGGGAGGGCATTCCTTTTCTTTCTTAAGCCTCAAAGCTTAATGGTCTCAAGTGTCACTGCTGTGTTTGTCTTACATAGTCTCAATTCTCTTTTTTAG
Seq C2 exon
TGGAATCAAGCTGGCCTGCACTTCATGTACCTTTGTTACCTCTGTGGGCGATGCTATGGCCAAGCATTTGGTATTCAACCCCTCTCACAGATCCAGCAGCATCCTGCCACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442-POGZ:NM_207171:14
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=0.000
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:
CAATCATGTTCCACGGAAGAGC
R:
GCAGGATGCTGCTGGATCTG
Band lengths:
164-375
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)