RnoINT0119744 @ rn6
Intron Retention
Gene
ENSRNOG00000007415 | Ptgs1
Description
prostaglandin-endoperoxide synthase 1 [Source:RGD Symbol;Acc:3439]
Coordinates
chr3:15570373-15572497:+
Coord C1 exon
chr3:15570373-15570456
Coord A exon
chr3:15570457-15572250
Coord C2 exon
chr3:15572251-15572497
Length
1794 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CAGGCGGCCTCATCCCACAGGTG
3' ss Score
9.04
Exon sequences
Seq C1 exon
GTAGACCTTGGCCACATTTATGGAGATAGTCTGGAACGACAGTACCACCTGCGGCTCTTCAAGGATGGGAAACTTAAGTACCAG
Seq A exon
GTACTGTTGGCTTGGGGATGGGACAGTGGGGAGGGTCTCCCTTGTTCTCTCTTATAAAGATGTCTGGGTAGGCAAATTGAAGGTGAGGGTATCCAGGAGGGCAGAGAGTAAAGGCTGGTTGCAGTTAATAGGGCAAAAGCAAATAAAGAACGAGATGGATTTCTGTGGCCTCCTGGGAATGCTTTTATTCCTTAGCCGTTCCATGGAGGAGCACCATGATGGGACTTAAACATTGACTGAGCAGTGTCTGTCTTAGCCGTGAGCCCTGCCAACCTCACGCCCATCAGGGGTCACATACATGACTGTTAGGATACAGGCTGTAGCAAGATTTCTTGTGTAAACCAGAGCTGTCCAATAGTAGTGTGAGCCTTGTATGGAATTCAAATTTCCTAGTGGCTTCAGTAACAAAAGTGAAAAAAAAACCCAGATAAATGGATTTTAATAATTTGCTTTACTTGGGCTGGTCAGATGGCACTTGCCACCAAACCTGACAACCAGGGTTTGGTCCCTGAGAGATAACTGATTCCTGCAAGTTATCCTCTGACCTTTTTGATACCAGGGTGCTCTCGCCTCTGCACACATAAATTAAAAAAAAAAGTAGTAAAAATTGAAAAGGTTTTCATTGGAGGTGGCTTTCTCTCTAGATTTTTCATAAAATCTTTAATTGAATAAGTAGAGTCACATGTGCAATAGCTGAAACATCAGCTTTAAACACTTAAAACGAAAGGGCTAGAGAAATGAGTCAGCAGCTAAGAGCACTTGTTGATCTCCCAGAGGACCTGGCCCTGGTTCCTGGCATCTACATAGTGGTTCGCAACTACTGTCACTCCAGTTCTAAAAGATCTGATGCCATCTTCTGGCTTCTGTGGCCATACTCACACTGGAGGCACACATACATACATACATACATACATACATACATACATACATACAACATACACACATGTACATACAGAAATAAACCTTAAAAAGGAAAATTCAAAACGAAATCAAGTAAAATATAAACTAAATGAAAATAGAGGTCTTCGGTCTAGTCAAATTTGGAGTCTTGGGGCCACAGGTGGCTAGTGGCTTCCACATTGGATTCTGGAAACCAGTAAGGACTGAAGGAAAATTCACTGGGGCATCTTCAGAGTGGAGAATGGCACTTGCATATAGCTTGGCAGTGTGTGTGCTTCATGAATAGACGAAGATGCCACCACCTATCTCATTATTCTTGTGATAACTGCCACCAACCATTTGTTACCATTAGACAGTCTGGAGGCTGGGACTGCTGCCCTAGGAAGTTAGAGTTGCAATGGAATTGAGGAAGTCAAGAACGGGCCGTGGTCATCTTCTCCTTGCTCCTGGGGGGTTTAGCTGTGAGAAGGCTTGAAGGCAGGAAGATCCAGGAAGATAAGCGATGTTTGGGTGAGAGGAGGGAGCTACTGTGGGTGATTCTAGCCACCTCTGTAGGGATGTGTTGTGTGGAGGAGGGAGTCTCTCCTTTCCTCCATCCCTCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCTCCCTCCCCTTTCTCTATACTTATTGCTGTGTACCCAAGAGGTAAGGGCAAGCGTCTAGGGCAGGCACTTAGGAAGCAGTAGGCAGGTGGGCCAGGGCTGAGGAAGTCATAGGAGCCGGCTGTGGAGAGCTCCAAGAGGGATCTTGGAGGAGGGCTGGAGTCAGGTTGCCAGGCGGCCTCATCCCACAG
Seq C2 exon
GTGCTGGATGGAGAGGTGTACCCACCTTCCGTAGAACAGGCGTCCGTGTTGATGCGCTACCCACCAGGTGTCCCGCCCGAAAAGCAGATGGCTGTGGGCCAGGAGGTGTTTGGGTTGCTCCCGGGTCTGATGCTCTTCTCCACGATCTGGCTGCGCGAGCATAACCGTGTGTGTGACTTGCTGAAGGAGGAGCATCCTACATGGGATGACGAGCAGCTCTTCCAGACCACTCGCCTCATCCTTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007415:ENSRNOT00000010218:7
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:
PF0309810=An_peroxidase=FE(7.3=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(22.3=100)
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:
AGACCTTGGCCACATTTATGGA
R:
TAAGGATGAGGCGAGTGGTCT
Band lengths:
326-2120
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]