GgaINT1022196 @ galGal4
Intron Retention
Gene
ENSGALG00000024479 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr25:2068269-2068742:+
Coord C1 exon
chr25:2068269-2068392
Coord A exon
chr25:2068393-2068670
Coord C2 exon
chr25:2068671-2068742
Length
278 bp
Sequences
Splice sites
5' ss Seq
CGGGTAATT
5' ss Score
6.79
3' ss Seq
AGCAGGGTGATGCTTCTCACTGT
3' ss Score
-7.42
Exon sequences
Seq C1 exon
ATGGCGGACACGGACCTTTTTATGGAATGTGAGGAGGAGGAGCTGGAGCCATGGCAGAAGATCAGTGATGTGATTGAAGATTCTGTGGTTGAGGATTATAACTCGGTCGATAAAACTACTACGG
Seq A exon
GTAATTAACTATTTTAGTCCAGAATTACTCTAGCTCTGGGTATTAAGGGGAAATGGCAGTGATTGGTTATGTCTGTCCCGTAAGTAATCTCATTTGATAGCTATGAATCCTGTTAATAATGTAATAAATGCCATTTTTGAGCTCCTGTTCCAGCTCTGTGCAGAAGGAGTGAGGTTTCAGGAGGTGCAGAAACTTGGGGGCAGTTCTTCATGTCATGTGGCCAAAGTGGTGCAGAATTGATCATTTACATAAAAGAAGAGCAGGGTGATGCTTCTCAC
Seq C2 exon
TGTACAGAGTGCTTCAGGAGGTATCAGCACCAACGGTGACTGCTTCACATCCTCCTATCAGTTCTGAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024479:ENSGALT00000041392:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.640
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCGGACACGGACCTTTTT
R:
CCACTTCAGAACTGATAGGAGGA
Band lengths:
196-474
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]