HsaINT0128803 @ hg19
Intron Retention
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
chr1:151400518-151400598
Coord C2 exon
chr1:151400299-151400517
Length
81 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
GTAAGGCTTCGGAAGAGGAGATGGCAGAGCCAGGTTGGGATGGTGGGTGGAGAACAGATGATTATCACTTGGTCACCGTAG
Seq C2 exon
CTCCCTCCTTCCCCTCTCCACCTGCAGTGAGCATTGCCAGCTTTGTCACTGTGAAGCGACCTGGTGTTACAGGCGAAAATAGCAATGAAGTGGCCAAATTGGTGAATACCCTTAACACCATCCCTTCCCTGGGCCAGAGTCCTGGGCCAGTGGTGGTGTCCAACAACAGCTCTGCTCATGGCTCTCAAAGAACCAGCGGACCTGAGTCTTCAATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442-POGZ:NM_207171:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.910 A=NA C2=0.936
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAGCACTTCTACCACTCC
R:
CCTGTAACACCAGGTCGCTTC
Band lengths:
177-258
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)