HsaINT0128790 @ hg19
Intron Retention
Gene
ENSG00000143442 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:18801]
Coordinates
chr1:151413404-151414681:-
Coord C1 exon
chr1:151414557-151414681
Coord A exon
chr1:151413563-151414556
Coord C2 exon
chr1:151413404-151413562
Length
994 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
ATGCCTCCCCTTCCCCACAGTTT
3' ss Score
11
Exon sequences
Seq C1 exon
CATGGCGGACACCGACCTGTTCATGGAATGTGAGGAGGAGGAGTTGGAGCCATGGCAGAAAATCAGTGATGTCATTGAGGACTCTGTAGTTGAAGATTATAATTCAGTGGATAAAACTACCACAG
Seq A exon
GTAACAAAAGCTCTTCTGATCTTAGATGGTTTAAATTAATTAAATTGAATGGTATTTTGGTTAACAAAGTGTGAGATGGAAAAGGACTTGAAGAATCCAGGGAGACCTCGTTGTGGCACTCACTGGTGCTGCCTTTTTTCCCATGCTCTAGTCTGTGAAAACCTCAGTTTCCTCATCCATATAGCTAGAAACTATATATTTAATTCATCGAAAACATTGGAAGGTTGGATTAACCAGTGTTTATCAAATATCTAGCAGTCTTCTTACTAAAAGATGTATGAACAAGAATTCAAAGTGGTGGTGTGTGTGTGTCAGTGCTCATTTATGTACCCAGTCAAAAATAGGTTCCCATAGTCTTGTTTTTTTTGTTTTATTTTGTTTTACTTGAACTTGGTTTCCTTTGTGAGTGGAGTAGAAATTGCCTTGTGTCTGCCTTCATGGACAGTTTACAAATTTAGGCTTGTTAGCTTTTCTTTCATAAAGGTGATACTGCTGGGTCAAATTCTAGATTGCCCTGAATTCAGAAAATGGGTGGTAGTTCTTTTGCTCCCCTAAATTGTACCAGTTGCTCTATATTTTTATCTTTCCTGTCTTGAGACCTGAAGATGGCATTGGTTTGGGCTGAAATAGGGCACAGTTCAGGGTCTTTTGGATGGCTTAATATGCATGATTATGAATACCACTAGTGGTAATAATAAACCTTTGAGTCCTAGAGGTTTGCTAGTGCTATGTAAGCAAAGATTAAAATCCCAGTTCAGTGGGCTCCGTGATGTAACTTAATTAACCAGGAGATGTGAGACGAAGAAGGGATTGTGTTTAAATGGTGGACTAAGGGTTAAGTAGGAGGAGAAATCACATGAACAGTTGGATTTATGAAACAGGAAACTTTTTGGCTATAGAGACCCACAATAAGATGGAAAGGGAAGATTAGAGCAGTATCCTTTAGTGTCATCTGTCCCTGTCTCCAAGTGACTATGCCTCCCCTTCCCCACAG
Seq C2 exon
TTTCTGTGAGCCAGCAGCCAGTCTCGGCTCCAGTGCCCATCGCTGCCCATGCTTCTGTTGCTGGGCACCTCTCTACATCCACCACCGTTAGTAGCAGCGGGGCACAGAACAGCGACAGTACAAAGAAGACTCTTGTCACACTAATTGCCAACAACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442-POGZ:NM_001194937:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.622 A=NA C2=0.752
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACACCGACCTGTTCATGGA
R:
CATTGTTGTTGGCAATTAGTGTGACA
Band lengths:
278-1272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)