DreINT0116946 @ danRer10
Intron Retention
Gene
ENSDARG00000076542 | pogzb
Description
pogo transposable element with ZNF domain b [Source:ZFIN;Acc:ZDB-GENE-100609-3]
Coordinates
chr16:38179590-38180020:+
Coord C1 exon
chr16:38179590-38179786
Coord A exon
chr16:38179787-38179879
Coord C2 exon
chr16:38179880-38180020
Length
93 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCTGGTTCTCTTCTTTCCAGGGC
3' ss Score
10.58
Exon sequences
Seq C1 exon
GTGACCATTAGGGCATATGTTGGGAAAAAAACACCAGGTCAGTCAGCTTCAAAAGCATCCACTAATATTCAGAAGAATAGTATTAGCAGTTCACAATCGACAACTCTAAGTGGCGACCAGCAATCAGAACAACAGCAATCTGGGAAGAAACAGGTCAGCAAGATGTTTCAGTTCCTGTCCAAGTTCCAGGAGCAGAG
Seq A exon
GTAAGCTCATGTTATGAGATAACAGATAAACTGATCCATTTCCACTGGAAATTACAACTCTGAAGTGTTTACTTCTGGTTCTCTTCTTTCCAG
Seq C2 exon
GGCTCAACTGGGCAGACATAAGTGTGTGGAGTGCACTTTTGACATTCCAGACTTTGTGAATCACTACCCCACTTATGTTCACTGTTCACTCTGCTTCTATAGCACGTGCTGTTCTCGTGCTTATGCAAATCACATGATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076542:ENSDART00000132087:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.525 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:
CTGGGAAGAAACAGGTCAGCA
R:
ATAAGCACGAGAACAGCACGT
Band lengths:
182-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]