HsaINT0128805 @ hg19
Intron Retention
Gene
ENSG00000143442 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:18801]
Coordinates
chr1:151395873-151396762:-
Coord C1 exon
chr1:151396425-151396762
Coord A exon
chr1:151396028-151396424
Coord C2 exon
chr1:151395873-151396027
Length
397 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
CTCTTTGTGCTTTATTACAGATT
3' ss Score
10.19
Exon sequences
Seq C1 exon
TACTGTTGCCCAGAAATGGTTGAATACCAGAAGAAAGGAAAGTCCCTGGATTCAGAACCCAGTGTCCCATCAGCAGCAAAGCCCCCATCCCCTGAGAAAACAGCTCCTGTTGCTTCCACACCCTCTTCTACACCTATTCCTGCTCTGTCACCGCCTACCAAAGTACCAGAACCAAATGAGAACGTGGGCGATGCCGTCCAGACCAAACTCATTATGCTTGTAGATGACTTCTACTATGGACGGGATGGTGGCAAAGTAGCCCAGCTCACAAATTTCCCTAAGGTCGCCACATCTTTCCGATGCCCACATTGTACCAAAAGGCTAAAAAACAATATTCG
Seq A exon
GTAAGTGTTTAAGAGCCTTGGAAGTTACCTTGAACAAGAGAAGACTTACATTTTCTTATATATTTTAAGTCTTTCTCTTTGGAGAATGGACCTAACTACTATGCAGTCTTGCTGGGGTTATCATTAAATCAATAACTAGGACTATAGAAGGAGATATTGTGGTAATAAACAAAAGGTAACTGGATCGAGTAAGGGAAAGCAGTATGTCTCCTTTCCCAGAACTCTCTTAGTTTCAAGAACTCATTATCTTTCTGGGCTCAGAAAAGGATATCCCAAACAGGAAGTCTGGGGAATGGAGGGGAGCAGATAATGTTTGTTCTGTGATTTTACCATTATATTTCTAAAAGGCTACCAATTTTTTATGTTTTCTGTACTTTCTCTTTGTGCTTTATTACAG
Seq C2 exon
ATTCATGAACCATATGAAACACCACGTAGAACTCGATCAGCAGAACGGTGAGGTAGATGGTCACACTATCTGCCAGCACTGTTACCGCCAGTTTTCCACTCCCTTCCAGCTTCAGTGCCACTTGGAAAATGTTCATAGTCCCTATGAATCTACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442-POGZ:NM_207171:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.466 A=NA C2=0.113
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGTCCCATCAGCAGCAAAG
R:
GTGCTGGCAGATAGTGTGACC
Band lengths:
357-754
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)