RnoINT0112552 @ rn6
Intron Retention
Gene
ENSRNOG00000008129 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:RGD Symbol;Acc:1309777]
Coordinates
chr3:46501910-46502787:-
Coord C1 exon
chr3:46502670-46502787
Coord A exon
chr3:46502041-46502669
Coord C2 exon
chr3:46501910-46502040
Length
629 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
AATGTATTTCTCTCCTCCAGCTT
3' ss Score
9.28
Exon sequences
Seq C1 exon
TGCTTCCTGGTGACAATCCCCAAGGACCCACGGGAGCTGAAGACCTGGACAGGTGCTCAGGAATTCTGTGCTGCCAAGGGTGGGACGCTGGTCTCCATCGAAAGTGAACTGGAACAAG
Seq A exon
GTAGAGTCTGAGGGGCCATTCAAGTCTTAGTCAAAGCAGCACCTCAAACTTGCGTTTACAAATCAGCCATACTGTGCTGCTAAGGCACAGGAAATTTCAGTTTGAGCACCAGGGTTTCTGCCACAACATCTGTGAGAGTCAGTAGGCTGCCTAGAAACTGCTGCCCTTGGAGGTTTTAACTGGATGGCTGCACTGGTGAGACTACGGACTGAGTGTGTGTTCTAAAATGGCAGAAGTAGTTTCTCAGGAACATCTACAGTAGTTGCAGGACAAGCTTCTTAAAGATCATTTTGAGTTCACCTATACGTTTCAATTTGAAACTTAGGCAGTTATAGATTTCTGTTTAAATATGGTGCATTAATTCCCCTTTGTTTAAAACACAGTAAGTAAACACTGGAAATTGTTTGGCTAATGATCTGATGGACTCTCAGGTTATCCCACTAATATTGTCAATTTAAAGTGAAACCAAAGTGAAAGTCACACTGTTAAGGGAACAAAGTGCAAAATTCCTATAACTGAGACATAAGGACGTTTGCTGAAATTTAAATACCATCATTTCTGTGGATAGCATTTCATGACAACCCAATGACTTGTGTGGTGTTATGAGATAATGTATTTCTCTCCTCCAG
Seq C2 exon
CTTTCATTACTGTGAATCTTTTCGGCCAGACCACGAATGTATGGATAGGGTTACAAAGTGACAATCATGAGAATTGGGTAAATGGGAAGCCTGTGGTGTATTCTAACTGGTCTCCATCTGATGTAATAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008129:ENSRNOT00000011003:21
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=PU(23.5=70.0)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCTGGTGACAATCCCCAA
R:
TTTATTACATCAGATGGAGACCAGT
Band lengths:
246-875
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]