DreINT0116930 @ danRer10
Intron Retention
Gene
ENSDARG00000054778 | pogza
Description
pogo transposable element with ZNF domain a [Source:ZFIN;Acc:ZDB-GENE-040914-76]
Coordinates
chr19:42881859-42882098:+
Coord C1 exon
chr19:42881859-42881971
Coord A exon
chr19:42881972-42882073
Coord C2 exon
chr19:42882074-42882098
Length
102 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TAAAATTCTTTATGTTTCAGAGG
3' ss Score
8.31
Exon sequences
Seq C1 exon
GAAGGGCCGTCTAAGTTGTACCAAATGTAAGTTCAATACTACGATTGGAGATTCGATGGCCAAACATCTCGCTAACTTTCCGAAACATCAAGCAAGCCGAAGCACCATTCAGG
Seq A exon
GTAAGTTTTTAAGTTCTGACAAAATAACAGGGACTATAGATGAGGAGTCTTTTAATACCAATAATAGTAATAATAATGCTAATAAAATTCTTTATGTTTCAG
Seq C2 exon
AGGGATTTTCACAAGGCTATAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000054778:ENSDART00000076938:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGGCCGTCTAAGTTGTACC
R:
CTTTTATAGCCTTGTGAAAATCCCT
Band lengths:
138-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]