DreINT0116948 @ danRer10
Intron Retention
Gene
ENSDARG00000076542 | pogzb
Description
pogo transposable element with ZNF domain b [Source:ZFIN;Acc:ZDB-GENE-100609-3]
Coordinates
chr16:38180430-38180675:+
Coord C1 exon
chr16:38180430-38180480
Coord A exon
chr16:38180481-38180562
Coord C2 exon
chr16:38180563-38180675
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TTTTGGTGTTCTTTTTGTAGCGT
3' ss Score
9.41
Exon sequences
Seq C1 exon
CAATCATGTTCCTGGAAGGGCTCCAAAACCTTCTAAAAAGGGGCCTCCAAG
Seq A exon
GTAATGTAATATTTGGATTTTGAGTTCTGTTTTGCTCAGTCTGAAACTGTACCTTATGGGTATTTTGGTGTTCTTTTTGTAG
Seq C2 exon
CGTTGTGAAGCTGACTTGTGCAGGTTGTGAATACTCCACTCCTCACGGAAATTTGATGGCCAAACATCTCATCAAGTTCCCTGATCACTCCTACTGTTTATTCATGCGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076542:ENSDART00000132087:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCATGTTCCTGGAAGGGCTC
R:
TGCGCATGAATAAACAGTAGGAGT
Band lengths:
159-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]