RnoINT0114693 @ rn6
Intron Retention
Gene
ENSRNOG00000053599 | Pogz
Description
pogo transposable element derived with ZNF domain [Source:RGD Symbol;Acc:1309980]
Coordinates
chr2:196037055-196037366:+
Coord C1 exon
chr2:196037055-196037111
Coord A exon
chr2:196037112-196037253
Coord C2 exon
chr2:196037254-196037366
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
CCTTGGTCCTCTTCCCACAGTGG
3' ss Score
9.23
Exon sequences
Seq C1 exon
CAATCATGTTCCACGGAAGAGTCCCAAGTATCTGGCTTTGTTTAAAAATTTTGTAAG
Seq A exon
GTAATAAAACACTTTTTGGTACTATCGAGTCTTATTATGTAGAGTGGTTATGTGACTCACTTCCATATTAAGCCTCGGAGTTTAACTTTGTTTAGTGTTACTGCTGTCCGTATCTAATATACCCTTGGTCCTCTTCCCACAG
Seq C2 exon
TGGAATCAAGCTGGCCTGTACTTCGTGTACCTTTGCTACCTCCGTGGGAGATGCCATGGCCAAGCATTTGGTGTTCAACCCCTCCCACAGATCTAGCAACATCTTACCACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053599:ENSRNOT00000082849:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATCATGTTCCACGGAAGAGT
R:
CCCGTGGTAAGATGTTGCTAGA
Band lengths:
170-312
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]