RnoINT0112555 @ rn6
Intron Retention
Gene
ENSRNOG00000008129 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:RGD Symbol;Acc:1309777]
Coordinates
chr3:46496472-46497604:-
Coord C1 exon
chr3:46497366-46497604
Coord A exon
chr3:46496641-46497365
Coord C2 exon
chr3:46496472-46496640
Length
725 bp
Sequences
Splice sites
5' ss Seq
GATGTAGGT
5' ss Score
4.9
3' ss Seq
GCTTCAAATCCCCTCTGCAGAAT
3' ss Score
7.78
Exon sequences
Seq C1 exon
ATACCCTTGAAAACCATGTAAACGTGTCTGATACCTATGCAGTCCCCAGCACATTAGAATACGGAAACAGGACTTATAAAATAATCCGTGCTAATATGACTTGGTACGCAGCAGGAAAGTCCTGCCGGATGCAGGGAGCAGAACTGGTCAGCATTCCAGACGTATTTCACCAGTCCTTCCTCACAGTTCTCCTCAGCAGGCTGGGGCACGCCCACTGGATTGGGCTATCCACACCAGAT
Seq A exon
GTAGGTGTTCTAAGTCTCTCTAATCATCTTTGCAAACTTTCTATTTCCTTAGTGAGAGACAATCACTGAAATCAGCATGCAAAAGAAATTCCCAGACACAATAGCAACATTGTAACATTTCAATAATTGGTGTATACAATAACTACTGGGCTTTGGTTGGTTGGTTGGTTAGTCGGTTTTGATTTTTTGGTGGTAGTGGTTGTGGCTGTTGTTGTTTGAGAATGCCAAGGCTATAAAACAAGAGTATACATCCTTTTAGGATAAACATGTACTTGCATGGTTTCAAAGGACCCAAGGGTCCTTTGAAAATTCTCAAGCTTCTCTGAGCACTGACTTATTTATGCAGTGAAATACATCTCAAACTCAAGTACTATGTTTGGGTGATTTGTTAGATTTCCGGAATCTACATTTAAAAAATGATTGCTGCTTTCTGATCAGAAACTTTATTATTAATTAATTTGCTGCCCTTGAAATAGAACATGAAGAGTTCTGTTTGTGTGATTTTGATTTTTTGTTTTGGTTTGCTTTGTTTTCTGTTCACTTTTGCTTTTTAAAACAAGAGTATTACATACTTGGATTGCTGAAAAATAAACTCTGTTCCTTCCAAAACCTCTGTTTCTTCTGGAAAGAAGTGTAGAACTTGGAAGGAGTGGGTGTTCAGGTAGTACTGGGTGATCCCAGCCGCAGGCTTAGCAATGAAGTGTTGCTTCAAATCCCCTCTGCAG
Seq C2 exon
AATGGTCTGAATTTTGACTGGTCAGACGGCACCAAATCCCCTTTCACCTATTGGAAAGATGAGGAGTCAGCCTCTCTTGGCGACTGCGTTTTTGCCGACACCGATGGTCACTGGCATGGCACAGCCTGTGAGTCACATCTGCAAGGCGCCGTTTGTCGTGTACTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008129:ENSRNOT00000011003:24
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(47.1=61.2)
A:
NA
C2:
PF0005916=Lectin_C=PD(51.0=93.0)
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:
ATACCTATGCAGTCCCCAGCA
R:
CGCCTTGCAGATGTGACTCAC
Band lengths:
357-1082
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]