RnoINT0114698 @ rn6
Intron Retention
Gene
ENSRNOG00000053599 | Pogz
Description
pogo transposable element derived with ZNF domain [Source:RGD Symbol;Acc:1309980]
Coordinates
chr2:196019968-196021522:+
Coord C1 exon
chr2:196019968-196020143
Coord A exon
chr2:196020144-196021413
Coord C2 exon
chr2:196021414-196021522
Length
1270 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CATTTTTCTTTTTGATACAGGGA
3' ss Score
8.47
Exon sequences
Seq C1 exon
CTGGTAATACTTTGGTCCAGCAAGGTGGACAACCACTCATCTTGACCCAAAATCCAACACCGGGTCTGGGAACAATGGTTACTCAACCAGTATTGAGACCTGTCCAGGTCATGCAGAATGCCAATCATGTGACTAGCTCCCCTGTGGCCTCACAACCTATCTTCATCACTACCCAG
Seq A exon
GTGAGTGGGGCTTCGACTTCTAGGTCTGTTTGGGGAGATAGACGGTGAGCCTGCAGAGGCTCTGCCTTGGACACGATCTTTATCATTGTTAGAGTTCTGTCTGTTGAACTGAGGTTCTCCGTACTGTTTCATGGAATTCTGCCTTGTGGAATGCTCAGCATAGCATTATGGCTACATGATATTGCCTGTCCATGCACCTGAGAGGTCTGTTGAGTTGAAAGTCTGAGCAGAAATCATCAGGAAAGTTAGAATTAGAAAGGCTTCACTCAGGGCTGGAGAGACGGCTTAACCATCAAGAACATTTGTTGTTCTAGCAGAGAACCCAGGTTCAATTCCCAGCACCTACATGTCAGCTCGTAGCTGTGTCTGTAACTTCACTTTCAGAAGGCTTGATGCCTTCTGACCTCCACAGACACCAGGCATCCCTGTGGTGCACATACATACGTGCACAGTCATACACATCTTAAGGGGAAAAAAACCTGAAGCCTTCACATTTGCCTTGCAAGGGATAACTTTTGCCTGGGCTGCTTCTATCCCCTAGGGTGAATTCATTGACTTTTAAATACATGTATAAAATAAGTGGTCTTTGAAGGAAGGCTCTGCCATACAGTATACCGGTTGTCAGTTGAAAGCCCAAATCTGGGTGGAATTTAAGAGGCACATGCTTCTTTCTGCCTTTGTAGTTACCAGAGGTTTGTGGCCTTTGAAGTGGGCTTGAGAGCAACATATTTTTAAAAAAAGGTGATTTATCTGTCGGAATACTAGATTAAATACTATTAGTGATTTTTCTTCCCTTCAAAGCACAGTGTATGGATGCATAGTTTTGTTGCTTTTGCTTCTTTAGTTTGCTAAGCACTCTGGGTGTGGTGTTACATGCTTATAACCCCAGCTTTTAGAATGAAGCAGAAAATTGTCATAAATTCAAGGCTTGCCTGGGCTCCATAGCAAGTTTAAGGCCAACCTGGGCTATATAAAGCCCTGTCTCAAAAAAACAGAACAAAAATACCCCAAAGATATTTGCCAACAGAATTAGGAGTTTGGGGGCAGCCTAAGCTACATAGCAAGACCCGTCTCAAGGCAAAAACAAAGGACAAAAAACACCCCATAAAAACCTAGCATGCCATAATTTCCTAAAATTCTCCATTTCAGTCATTTGAAAGCTGTGATTCTAGAGAGAGCTGCTAGGTAAGACTGTGGAGCTGTCAGTCATATTGTAGTCAGTGTCTGGCTAGTTGGTCTGTATTAAAGGTCATTTTTCTTTTTGATACAG
Seq C2 exon
GGATTCCCTGTAAGGAATGTTCGCCCTGTACAGAATGCCATGAACCAGGTTGGGATCGTGCTGAATGTACAGCAAGGCCAAACAGTCAGACCAATTACACTGGTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053599:ENSRNOT00000082849:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.616 A=NA C2=0.351
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:
GGTAATACTTTGGTCCAGCAAGGT
R:
ACCAGTGTAATTGGTCTGACTGT
Band lengths:
278-1548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]