HsaINT0128802 @ hg38
Intron Retention
Gene
ENSG00000143442 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr1:151428123-151429711:-
Coord C1 exon
chr1:151429603-151429711
Coord A exon
chr1:151428414-151429602
Coord C2 exon
chr1:151428123-151428413
Length
1189 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACTTTGTCTCTCTTTTAAAGCCC
3' ss Score
9.83
Exon sequences
Seq C1 exon
GGATTTCCTGTAAGGAATGTCCGGCCTGTACAAAATGCAATGAATCAGGTTGGGATTGTGCTGAACGTACAGCAAGGCCAAACGGTTAGACCAATTACACTAGTTCCAG
Seq A exon
GTAAGGAAAAATGTCTATCCATTTGGAATAAACTGGCATCCAGAAGATTTGTTTTTATTGTTCTAAATATCCTAAGTCATTTAGTAAGTACATTTAAAGAAAATCTAAAAATATAAAAATATTAATGATTTAAGCCCAATTTTAAAAAATCTGCTTCTAACCTTTGGCCAGGGTGGTGGTTTTATTTATTTCTGTTTAGCTTTTCACCACCCTTCATCAAGTAGTAAAACAGAGTTTACAGTCATTTTTCTGTAACTGGTATTTAGTCAGCTATTAAGACTATGTTATTAATGCAAACTCATAAATTCTACACTCCTTACACATCTCCTCATTTGCACGGTGGGATTATAAACTTTGTTTTAATTTTATAGCATAGATTTTAGATATAAACAAATGACATTCCTTTTATGGATAAATACTGTCAATGACTAGATAGTTTTTTTTTTTAAGATTCTGCTAGATAGTTTTTTTTTTTTTTAAGATTCTGAGAAGGATAATTTTTTTAAAATCTTAGAATTTTCCATTGCTCTATTTAGCATGTATAAGTTTACTACAATTCAGACCAAAAAAGAGTATCTTAATTTAGCTATTTGTAAGGGTACCTCTGTAGCTTGTCTTCCTAAGGTTTTGTTTTTTGTTCTCGTAGCCCATAGGGGTTTAAGTCTGACCAGCTTACCCTGGCATTTCTTTATTTTTCTCAGTGGAATTGTCTACAGTTGAGCCAGGAGACATTCCTCTTTGGGACATCCTAGTAGAATGGCATAGTCTGTCTTCTGAGTTGATAGAAGAGGATGGAAGACTCCTTTAGTACTCTGAGAAAGACTGATTTCTTTTTTCAGGACCAGGTTTGCCATTTGGCCTATATACACCCATATTGCTTCCCACTCTTTTCTTCCAGTACCGAGGTCAAGCCACTGATTGTATTCTTAGAATTAAAAAGGCAGTGTGATAAGGTGTTTTAGGAGGAGTTGATGGGAGTCTTATTTAACTTAATGTTTTTAGGCTGCCCAGGTTATTTTGTCAACATGGACACCTTGTGCTTTCTTAGTCTTTAGAATCTATACTCCTCTTGGAAACCTCTGATGATCATCCATCAGTTTGGGGAAATAATCTTTCCAGTAAAGGCAGGGAGAATGTGTTATAGGTGAGCTCACTGACCAAGATCTGGTACTTTGTCTCTCTTTTAAAG
Seq C2 exon
CCCCAGGTACCCAGTTTGTTAAGCCGACAGTTGGAGTTCCACAAGTGTTCTCCCAGATGACCCCTGTGAGGCCAGGCTCCACAATGCCTGTGAGGCCCACCACCAACACCTTCACCACCGTCATCCCGGCCACTCTTACCATTCGAAGCACCGTCCCACAGTCCCAGTCCCAGCAGACCAAGTCCACTCCCAGCACTTCTACCACTCCCACTGCCACACAGCCAACCTCACTGGGGCAACTAGCTGTTCAGTCTCCAGGCCAGTCAAACCAGACCACGAATCCCAAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143442:ENST00000271715:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.346 A=NA C2=0.920
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:
TCCGGCCTGTACAAAATGCAA
R:
TTGACTGGCCTGGAGACTGAA
Band lengths:
357-1546
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