DreINT0116955 @ danRer10
Intron Retention
Gene
ENSDARG00000076542 | pogzb
Description
pogo transposable element with ZNF domain b [Source:ZFIN;Acc:ZDB-GENE-100609-3]
Coordinates
chr16:38171342-38171712:+
Coord C1 exon
chr16:38171342-38171514
Coord A exon
chr16:38171515-38171612
Coord C2 exon
chr16:38171613-38171712
Length
98 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
CGTCCTTTCATCTGATACAGGGT
3' ss Score
8.87
Exon sequences
Seq C1 exon
TAACTCAACGTGCGGTTGTGCCGACTGAGATCCCTAAAGCAGTGCAAGGGCAGCCGGTCATCTTGGCACCAGGAGGAGGTGGACTGGGCACTGTGGCTCTGTCACAGGTTCTCCTGCCTGGAACATCTATTGCCAATGTTACCAACAGTCAGCCGATCTACTTTACCACACAG
Seq A exon
GTGCTGCCATTTCACCATATAGATTCCAGCACATCACTCAACAAAAGCACATTGTCTCAACAAGTGTTCATCTATGTGCGTCCTTTCATCTGATACAG
Seq C2 exon
GGTCTTCCTGTCCAGAATATCCAGCCTGGCCAGGGTCCAATGAGTTTAGTGCTGAATGTCCAACAAGGCCAAACTGTTCGACCGATTACTCTACTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076542:ENSDART00000132087:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.052
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGCTCTGTCACAGGTTCT
R:
AATCGGTCGAACAGTTTGGCC
Band lengths:
169-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]