RnoINT0119747 @ rn6
Intron Retention
Gene
ENSRNOG00000002525 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:RGD Symbol;Acc:620349]
Coordinates
chr13:67351087-67352132:+
Coord C1 exon
chr13:67351087-67351281
Coord A exon
chr13:67351282-67352015
Coord C2 exon
chr13:67352016-67352132
Length
734 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTCTTGTCTTTTTAATATAGCAA
3' ss Score
6.32
Exon sequences
Seq C1 exon
GTTGTCAAACTGAGCGGAGAGCTTCAGGAGTACGAAGACCCTGCCTACGAAGGAACTCAGCTCTGTGTCCTGCCAGCTCCCCCGCCAGCTTCACTGCCACCAACGCTGCCACAACTGCTGCCACCACCGCTGCCACCTCTGCGATGCTCTTCCGAGCTGTGCTGCTCTGCGCTGCCCTGGCGCTCAGCCATGCAG
Seq A exon
GTGAGTGAGTGGCTTCGCGCCCCGAAGCACCCCTGGAGGGACTCCTCTGGCTCAGACCCCTTTCTAGGAGTATGGGATGGGCTGTGTATTGGCAAAGCGCCTGAGCCGCTAAAATCCAAAGGAACTGCAAGGATGGCAGGGGTTTTGCCACCGCTTTCAGGTTATGAGCCATTACTCAACTGAGCAGAGAACCACTTTCATTTGCTAAAATGAAATAGTCGTAATGGTTGTCGTTATGGTAAGACAGAATTTGATCAATACTTGTGAAAAGCACGTGTGTGGGCAACCGAACAGGAGTGATTGCTTTAAATACATGTTGGAGGCTCTTCTTCCCACAGGAAAATCCAGAAGACATTCTAAAAAAATATTCAAAATCTTAAAACTTGACTATTTTACTTTTATATTCCTTACACTAAATTTTGACAAATGTACTTTTTAATTTTCAAAGGGCTAACTTAACAATTCTAGTCTGAATATCCAAGTTATTTTGAAAATGTCGATAATGTGAGCCAGGAAGTTAGGTCCTCAGCTTTTCTTGCTTAAGAATAGAAAGTTGTTATTTCTACATTACAACCATTTCATAAGACAGAATTAGTTAAAATAAAACTTTTTTTTTCTAGGACTACCTGTGTATTTGTCAAACTTACCATTGTAAAGTTGACCCATAGTGACACAATTAAATCTTTAAGATGAGTCAAGAGTGACTGACAGGCTGTCTTGTCTTTTTAATATAG
Seq C2 exon
CAAATCCTTGCTGTTCCAACCCATGTCAAAACCGTGGTGAATGTATGAGCATAGGATTTGACCAATATAAATGTGACTGTACCCGGACTGGATTCTACGGTGAAAACTGTACTACGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002525:ENSRNOT00000003567:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=82.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTCAAACTGAGCGGAGAG
R:
GCGTAGTACAGTTTTCACCGT
Band lengths:
312-1046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]