DreINT0116959 @ danRer10
Intron Retention
Gene
ENSDARG00000076542 | pogzb
Description
pogo transposable element with ZNF domain b [Source:ZFIN;Acc:ZDB-GENE-100609-3]
Coordinates
chr16:38174983-38175442:+
Coord C1 exon
chr16:38174983-38175086
Coord A exon
chr16:38175087-38175158
Coord C2 exon
chr16:38175159-38175442
Length
72 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CGAATCCCTTTCTCTCTTAGTTT
3' ss Score
7.82
Exon sequences
Seq C1 exon
CGATCCCACTTCCAAATGCAACCTCATCAACAACCACCACTCATTTGTGTCCTCGTTGTGGAGCTCAGTTCAGAATGATTGAGGCTCTACGCGGTCATATGTGT
Seq A exon
GTAAGTACATACTTTGTGAGGAGACTGTAAATGTGTTTGGTCACCTAAAAAACGAATCCCTTTCTCTCTTAG
Seq C2 exon
TTTTGCTGCCCTGATCTGGTCCACATGACTGAAACAAGCAGTACCCCAACAGCTGTGAAACCCCCAGCAACACCACCTAAGAGTGCCTCTGTTGTGCCTAGTGCCAAGGTGGATAGCCCACCTAGCAAAACAGGAGATAGCCATCCCAGACTCGTCATGCTGGTTGATGATTTCTACTACGGCACATTTGAGGGAAATCGAGTCTATGTACCAATGGACAACTCAAAAGAACCATTATCATTCAGATGCCTGACCTGTAGCAAGAAACTAAAGAATAATATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076542:ENSDART00000132087:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.379
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=PU(84.0=60.0)
A:
NA
C2:
PF139121=zf-C2H2_6=PD(8.0=2.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAGGCTCTACGCGGTCATA
R:
TGACGAGTCTGGGATGGCTAT
Band lengths:
183-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]