RnoINT0112567 @ rn6
Intron Retention
Gene
ENSRNOG00000008129 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:RGD Symbol;Acc:1309777]
Coordinates
chr3:46554959-46558304:-
Coord C1 exon
chr3:46558206-46558304
Coord A exon
chr3:46555072-46558205
Coord C2 exon
chr3:46554959-46555071
Length
3134 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
ATTTTGTTTTTCCCCCCAAGGGC
3' ss Score
8.26
Exon sequences
Seq C1 exon
GACGGACGCTGGAAAGTGAAAGGTTGTAAAGAAACACTCCCTTACATTTGTAAGAAAGCAGGACAAGTCCTTGAGGATGAGGACTCCGGATGTCAAGCG
Seq A exon
GTGAGTATGCTGATTCCTGCCATGGGGCGCGGGGACTACAGAACTAGCACAATGTGCCCACCATGGAGTAAAGCAGCCCCGCTTCTCAGTGAGACTTTTCCCCTTCAGATCTCCTCTGGAGGTATAGAATGCTTCTCAACCCTCAGAAGGACATGTTTTACTGTGCTCTGTAACCTAAAACTACTTTTTTTTTTTTACAAAGATAAAGCTGTAAATGAACCCATCATTCTCTATAAAAACAACGGCGATCACGTGATGCCCCATCTCACACATCACGTGATGCCTCTTCGCATGCTCGGTTCTCCCAGTTCTTAAGTGGGGTGCCTGGGAGTGTGGATACTTTCTTCAGAGGCAGAGTTCGAGGTTCTGCTGCCAGGATCTTGCCACCCTTTTGCCCTTCTCAGTCTTAAGTGTTGGCAATGATACAGCAATGCGCTCATAAAGTATATAGTTCTCAGGAAACGGATGGTAAGGCTGTGTTTGGTGCAACTGGCACGGTGTTTTTACATACTTTAAATTAAAACTATCGCTTTAGCTTTAAATCTAAAAGCTAAAAAGGTTTCAAGTTTCTTTAATGCATATGGATTTTGCATAAAGTTTTATAACTGTCAGTTTTACTCTCTTAGAACCCTGTCCATTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATTTTCTAATCCACATATTTGTAGTCCAACTAAGGAGTGATCCATTTCAACAGAAGCTGCATTTTCCTCATTAATCAATATGTATACACATGAGTGACCCCACACACTCCAGCCAGACAGTACCCATGCCTTAGGCAACACAGCACCAGACATTCTATCTAAAGACACAGTTCCTGAACACAGACCTAAAATCTACCTTTCTGTGCCTTCCAAGGCAAGCCGGCGGGATTGTGAGAGAACAGCTCAAACAACTGCTGTGTCCTTTGAACTCTGCTCTGCTCACTCTTCTCAGCAAGCAGCCCCGGTATTTAAAGATTCCATGTCCAGAGATAACGCTTGCATTTTATGGGAAATTTCCCATTCATTTTATTTTGTATCAGTTTAGGAATCTGCCCCGCCCCCTTGTTGCAATAAAACTTGCTAAGTGATTGGTACATGTAGAATGAATTTATAAAATGAGTCCTGAAGCCAGGAATGTACTATGATTCTAATACTCAAGAAGTTATGGAAGATCATGAATTTGAGACCAGCCTGAACTCTATACAAGTTCCAGGCCAGCCTGGCTACACAATAAAACCCATCTAAAAACCAAAACAACATTTTTTTAAAGTATTGATTATCTCAAAGGCAAAACAGTGATGTTTATTTCCCACTGAGTCACTTTGGGGTATTGGGCAGTATGGGCAATGCTTCTAGCTTATTAGCTGAGAACTACTATTAAATAAGAAACACTTTGTCAGAAAGGTCAACGATCAGTCATTCTTCCTCCTGTCCCTCCAGGGACAACCCAGTGGGACCTGAGGAGATCGGTCTGAAGCTTTTACATTGAGGCCCCAGAACAGAGCGACGGGAGAAAAGCAGAGTAGACCATGGGTGAATGGAGGAGCTCTGTGGCTGCCTTGTTTCCTGGGGTGTATTTTCGTTTTTAACTGAACTAGCCAATTTCTAAAGTGTTCTGCAGTTAACCACAGAACTAAGATCTTTTCCAAGAAATATCCTAGAGCTCATCTTGTGTCTGATCAAAAGCTGGCGATCACTGGTGAGGCACAAAATGGCGAGTGTTTAAACTGGCCAGGAAGCAAACATGGACAGACAGAGTCATGTGACTTGGTAGTGTAGGAAGCAGAAGGGAAGTCGGGTGTGCTAGAATGGATGAATGAATGAATGAATGAATGAATGGCCACTTTGCTATATGATTTTAAGGAAGAGACCCACCCTACTTCACTCCCACCGCTAGCCGACAGAGCTACAAATTGTCATCTTTAAGTCCCCAAACTTACATTCTTATTCCCCCAAAGGACATCCACTTAATTTGAGGGAAAAAAAATCTTAGCCGTATATGTTTATGTCTCTGTATTAGGGAGCTCTTGTCTGCTTGGAAGCATTATCATCCAAATAAGACCATCCTGGAGGCTGGGGATGGAGCTCATTTGCAAAGGACTTGCCAAGTGTGCCAAGACTCCTAGGTTCCACCCACAGCATGGGGGGGATAAAAGACAACAACAACAGAAGCTAAAACAAAAAACAAAATAAACAAAAAAATCCCAGTTACTTTACCTGGGCTCAATGGCTCTTGTAGTTTAACTCCCAGGAGGTTAAGGCAGAAGGTTCACAAGTTCCAGGATAACCTGGGCAACTTAGCAGGTGCCAGGTTAGACAAGGGTGGGCTACTGTGACTCAAAACAACAGCAGCAACGAAAAAGTACCCCAGATTAGAGAAGAACTAGGTAGAACTTCAGTACAGGCCCAGCTAGTCAACTGGTTAGTGATTCTCCTTAAGTCCTGAGGAACCCAAAAACCGCTGTTGTGAAACCAAAATGAAAACTCCATCACACTCCGAACTACCTCCAGGCTTCACTGCTCCTCCGAGGTTTCTTCTTCTACTCAAGATCTCTCCTGCATTTTCTCCTTTGCTCCTTGGGACAGCCATAAACATTACCCTTACCCCTCAGTTCACAGATGAGAAAACTAGATGTGGAGAGATTATGTCTCTTCAAATGCATGCATCATTTATAAAGTAGTAGAATGGGGAACCCAGAATTCAAACCGGTGAGCAGCCTCCCTCCATGGTCAATATTGTGTTTTAACCCAAACACCACAGCCGTGTGAAAGAAATTCTGTGAGCCTAAGAAAGAATGGTGGCTCTCGAGTGAGTATCCCCTTCTCGATTTGTTTGTTTTTTGCAGTGTTTCCCCTTTATTTTCAGTTGTGTTTGTTTTTAAGGTGCTTGTATTTTTTTTGAAACTAGTAATTAAATTAATTTGTAAACTAGTTAATTAAATATAGACGGGGCTGGGACCAGTGGCAATTCCGGACAAACAGAATGCTGTGGAAAAAAATCTGAGTCAGGAAAGAAAGCAGAGCAGGTGGGAAGGAGGGAGGGTCTCTCGGCGTTTAACTAAGACGCCTTGCGTCCTTAGTTTCCCTATTTTGTTTTTCCCCCCAAG
Seq C2 exon
GGCTGGGAAAGACACGGCAAGTATTGTTACAAAATCGACACAGTCCTGAGAAGCTTTGAGCAGGCTTCCGGTGGTTATTACTGTCCTCCCGCCCTCCTAACCATCACCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008129:ENSRNOT00000011003:9
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:
PF0005916=Lectin_C=PD(16.5=54.5)
A:
NA
C2:
PF0005916=Lectin_C=PU(10.0=21.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]