RnoINT0112546 @ rn6
Intron Retention
Gene
ENSRNOG00000008129 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:RGD Symbol;Acc:1309777]
Coordinates
chr3:46516741-46517391:-
Coord C1 exon
chr3:46517356-46517391
Coord A exon
chr3:46516899-46517355
Coord C2 exon
chr3:46516741-46516898
Length
457 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
GTCATGTGATTTCCTTGCAGATG
3' ss Score
10.09
Exon sequences
Seq C1 exon
ATGTGAAACCCAATTTTCCAGTCTGGTACCAGTACG
Seq A exon
GTAAGGGCCAACTTGGTAATTCTCTAACTTCTAAATCACACCATGGAGGGGTTACTATGAGTGCATTTTCCTCTCTTTCCACACACCCATTCTCTGATATATTCATCTGGGACCAATTAGATCATATCAGCAGATCAAGAATGGCATAATCAAAGTAATAGATATACACATTAAGTAAGGGTGAAATTAAGATCACGCCTCTATTTCCACAGCCTATTATTTTAAAACATGGATCTATCCCTATCTCAAGTGTGGTAGACTAAGAAAATAAGTGAATTGTAAGTGTGCTCACGTGCACGTCTGTGCGTGTATCCATACATACTTACACCCCCTTTTTTTAATGTCAAATGACCAAATTACAATTTGGGAGTCAATCACAGCCTGAACTCCTTCAAGTCCCCCTTACATCTCTCGCTAGTCCCGAGAGCGTCATTGTGGTCATGTGATTTCCTTGCAG
Seq C2 exon
ATGCACCCTGGCTCTTCTATCAGAATGCCGAGTACCTCTTCCACACCCATCCTGCCGAGTGGGCCACCTTTGAGTTTGTCTGCGGCTGGCTGCGAAGTGATTTCCTCACGATTTATTCTGCTCAGGAGCAAGAATTCATCCACAGCAAAATCAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008129:ENSRNOT00000011003:16
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:
NO
A:
NA
C2:
PF0005916=Lectin_C=PU(32.4=67.9)
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:
TGAAACCCAATTTTCCAGTCTGGT
R:
CGCTCTGATTTTGCTGTGGATG
Band lengths:
191-648
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]