RnoINT0119755 @ rn6
Intron Retention
Gene
ENSRNOG00000002525 | Ptgs2
Description
prostaglandin-endoperoxide synthase 2 [Source:RGD Symbol;Acc:620349]
Coordinates
chr13:67356107-67359335:+
Coord C1 exon
chr13:67356107-67356254
Coord A exon
chr13:67356255-67356510
Coord C2 exon
chr13:67356511-67359335
Length
256 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ATATTGTCTGTACCTTCCAGGAG
3' ss Score
8.6
Exon sequences
Seq C1 exon
GTTGCTGGGGGAAGGAATGTTCCAATCGCTGTACAAGCAGTGGCAAAGGCCTCCATTGACCAGAGCAGAGAGATGAAATACCAGTCTCTCAATGAGTACCGCAAACGCTTCTCCCTGAAACCTTACACATCGTTTGAAGAACTTACAG
Seq A exon
GTGAGAAACGGTTGCTGAAATTTCTAAAATGACCAAGGATTAAATGAGAAAAGAGAAGGTGAGAGGGAATTTAGTGAAGGAATAAACTGTCTTCCTCCTCTTCCTCTTTTTCGTCTTCTTCTGGAAACAGAAAAGGATTGAGTTTATTGAGAAAGGGGAGCAGGAATGGGGGTCGGCTAGTGAATGTATACTCGTCATCCAGGGCTATTGTCGGCAATTCCCAGTTTGATATAGCCATATTGTCTGTACCTTCCAG
Seq C2 exon
GAGAGAAAGAAATGGCTGCAGAGTTGAAAGCCCTCTACCATGACATCGATGCCATGGAACTGTATCCCGCCCTGCTGGTGGAAAAGCCTCGTCCAGATGCTATCTTTGGGGAGACCATGGTAGAACTTGGAGCTCCATTCTCCTTGAAAGGCCTTATGGGTAATCCCATCTGTTCTCCTCAATACTGGAAACCTAGCACCTTCGGAGGAGAAGTGGGTTTTAGGATCATCAACACTGCCTCAATTCAGTCTCTCATCTGCAATAATGTGAAAGGGTGTCCCTTTGCCTCTTTCAATGTGCAAGACCCGCAGCCTACCAAGACAGCCACCATCAACGCAAGTGCCTCCCACTCCAGACTAGATGACATTAACCCTACAGTACTAATCAAAAGGCGTTCAACTGAGCTGTAAGAGTCTACTGACCATATTTATTTATTTATATGAACAATTTAATTTAATTATTTAATATTTATACAGAATGCTTTTTTTCACTTAACATCTTCTATAACAGAAGGCAATATTCTTGAACAATGTTCCATTTGTGAAGATTCCTGTGTTTGTACTTTAAATATGTGTTATCCGAAAATGAAAGGGAAAAAAAGAACACTTTCATTTTTCGGCATAAGCCAGTGAGAAGGGAAATGAATTTTGATATCTTTATACTTGAATGTCAGCTCATGACTAGCTTAATAAGAACAAATGAAAGGTGTATGAATATTTAAATGCTGTTACAAGGAGGGAAATGTGAATATTTAAATGCTGTTACAAGGAGGGAAATGCTGCATTGTTGGTTATGACTGTGTCATCCTTACTATGTTAGGAGCAACCGATGTGGAATTGTTTTTAAATCTTGCATATCTTTATCTCATCAAAGCAAAGGGGTACAAGTCCAGTTTTAAATGAGCATGAAGGCAGATACCGGCAACTGTCTTTTTATTTTTTAAAAGCAATCTTTTGAAACAAATGATTTGCAATGTCTAAATCAGGAGTTGGAATCACTTTCGAAAGCCCTTACTTTCTTGAGCTGTCAAATTTGTACCCACACAGATTAAGCAGCTACCATAAACACAAATCTCTAAAACTGGGGAAAACTATTATGACTGATGGTTAAGATACCATGTCAGGGATCTTTCTTTTCTCAGGAGTAGTGAAAAGCTACTATGACAATCAGACCTTCCTTGTACGTCAGATTGCTGGCGTAGGAAGGTGGCGGAGCCCGTGATGTTCTGTCCTAAACGATGGAAAAGCTTTAAAGCTTGTGTGTGAGTGGTAGCCAGCAAAACCTATCATAGCAACAAAAGAGTCCACAAACAAAATAACCAAGAACAAAGAAGGGTTCCAAGCTAAAGACCGCATCGAGGGTTAAACTTTTGAAGGAGACTTTCAGATCCTCCTGTGGTGCTGGCTGTGACTTGCCAGGCTGGACTTTTAAAGAGTTTTTCTGTTGCACAGTATGACACAACAGCCCATCTCTCAATGCAAAAGGTATCAGTGGGCTTCTTCAAAACTTTGAAATGTCTTCCAGCTCACGGTACCAGAAGTGCAGTAGGCCCCATGCAATGTGTGAGTTCAGCCTGGATGCCAGCATGATGCTCTCCTTACTCTGTTTCTTGTAGTCATTTTGCTCTGAGAAACTGCTGATTGATCTGTTTTTGTAGCTGTGTTCCAGGCTCTTAGTATTCTTTCTTTAACCTCCATTAATATTTTCTCTACTTGAAGTTTTACATTCAGGAAAAACCTCAGCTCAGGACTACTGTGTAGCTCCCCTTCGGAGGAAGAAGTTACTTTAGACAAAAGGCAAAAAAATTAAATGTATTTTTCATTTGTAATTATATGGAAGGGCCCTACCAAGATGCTAGAATTGGAGGGGGTTCCTGACAAGAAAGTTACATTCTTGTCCTGAAGAATTGCTTTCTTATTTAAAAACAGAGTCAGTTAGTGGGTAGTTCTGGGCAATAGAAATAAATATAAAACAATAATGACAATCATTCTCTACATCTCATTATCAGCTGAGGTACTGTATATTACTGAATTTACTGAAGATAGTTATGTCTTTCAGACATTGTTGTTATAAACTATGTTTAAGCCTACTACAAGTGTTTCTTTTTTGCATTATGTCAGAATTGATGTACCTTTTTTTTAATGATTACCTCCCTGTACTACTGTGCGAACAATCAAACAAAATGATGAGATTAATGGTCATGGATAAATTTCAAGAAAACTAGTGTATTTGATTGAAAAGTTTAAAGTTAGAACTTAGGCCATTGGAATTTACTCATATAGCAAACTGCGTAGAGCCAATATTGACTCACCTACACACGTTATACAGATTGACATTTTAGACATTTTGAAGGCCCCGTAGGTATTTTATTAGTTAGAACTTAATTTTTTGAAAAACATATCCAAAGCACAATAGGCATTAGAATTTGTGCATCGAGAACTGATTACAAATAATATTGATATGTATGTAAATAACTGAGAAGTATGTCTTATGAAGAAATATATTTTATTACAAAAAATTATAAAACATTTTCAAGATTATATGCTTTAAAAGTTTAAGATCAGAAAATAATCAACTTTAGAAAAACACGTATAAAAATTGTTAACATCATTGATTAAAAAAAAAAAAAAAAAGCCAACATGATTGTTGTGAACATCAACCTGCTGACTGAACCTGGGAATTCAGGTTAAGTATGTGACTGCTGCCGTGCCTCAGAGAAATTTGTATTTAAATTAACTTATGTAAAAAAAAATCTTAGAACAAATGTTTGTTTATTTTTATACTTATTTAAGAAATTGAAAACTTCTGAAAATAAAGTTTGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002525:ENSRNOT00000003567:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(11.1=100)
A:
NA
C2:
PF0309810=An_peroxidase=PD(22.4=72.3)
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:
CCTCCATTGACCAGAGCAGAG
R:
CGAAGGTGCTAGGTTTCCAGT
Band lengths:
303-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]