RnoINT0114700 @ rn6
Intron Retention
Gene
ENSRNOG00000053599 | Pogz
Description
pogo transposable element derived with ZNF domain [Source:RGD Symbol;Acc:1309980]
Coordinates
chr2:196023216-196023795:+
Coord C1 exon
chr2:196023216-196023506
Coord A exon
chr2:196023507-196023585
Coord C2 exon
chr2:196023586-196023795
Length
79 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
TTTTCACTTGGTCAATGTAGCTC
3' ss Score
4.3
Exon sequences
Seq C1 exon
CCCCAGGTACACAGTTTGTTAAGCCGACAGTTGGCGTCCCACAAGTGTTCTCTCAGATGACCCCCGTGAGGCCAGGCTCCACAATGCCTGTGAGGCCCACCACCAACACCTTTACCACCGTCATCCCAGCTACTCTCACCATCCGAAGCACTGTCCCACAGTCCCAGTCCCAGCAGACCAAGTCCACCCCCAGTACCTCCACTACTCCCATTGCCACACAGCCAACCGCATTGGGGCAGCTAGCTGGTCAGCCTCCAGGCCAGCCCAACCAGACCTCGAATCCCAAACTAG
Seq A exon
GTGAGATGTGGACGAGGAGACGGCAGAACAGCATGGGGCAGTGGGTGGGAAACAGATGATTTTCACTTGGTCAATGTAG
Seq C2 exon
CTCCCTCCTTCCCCTCTCCACCTGCAGTGAGCATTGCCAGCTTTGTCACTGTGAAGCGACCTGGGGTTACAGGTGAAAATAGCAACGAAGTGGCCAAGTTGGTGAATACTCTTAACACTATCCCTTCCCTGGGCCAGAGTCCTGGGCCAGTGGTGGTGTCCAACAACAGTTCTGCTCAAAGAACCAGTGGACCCGAATCTTCAATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053599:ENSRNOT00000082849:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.939 A=NA C2=0.944
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCACCATCCGAAGCACTGTC
R:
CAGGTGGAGAGGGGAAGGAG
Band lengths:
181-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]