RnoINT0112558 @ rn6
Intron Retention
Gene
ENSRNOG00000008129 | Pla2r1
Description
phospholipase A2 receptor 1 [Source:RGD Symbol;Acc:1309777]
Coordinates
chr3:46492578-46494046:-
Coord C1 exon
chr3:46493930-46494046
Coord A exon
chr3:46492755-46493929
Coord C2 exon
chr3:46492578-46492754
Length
1175 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GGCAGCGTTTTTCTCCACAGACA
3' ss Score
9.13
Exon sequences
Seq C1 exon
GATCCAATCTTTTGGCAATCAAGGATGAGGCTGAAAATTTATTTCTCCTGGAAGAGCTTCTTGCCCTTGGTTCTTCTGTCCAGATGGTTTGGTTGAATGCTCAACTTGACAATGACA
Seq A exon
GTGAGTGCTGCCGGTGCGGAGGAGGCGCAGATAAATACGCAGTCCTGAAGGCCTCTGGGAGCCACAGAACTCCTTTTGAACACATTTGCTGTGAAAATACAGTGTGAACCCTAAAGCCCCCTCCTAAACAAAACAGACAAGTTAGCCTTCATGCAGGCACTGACGATGCTAGCTAGCTCCCACTCTGTTCCCAGACTCAGTCCTGCAAAGGCAAGCCACACTGACCTGAAAACACCCCACTCTCTCTCAAGTGTTAGTCACAAAGCACGGCAGCATGGGGAGCTCTTCCAGTGAGCCACCCTGCTTTCTGAATCCTCATAGGTACCAATGTGGGTAATCGGGGGTTTTCTTCTCTTTGTGTAACTGATGTTATTGAGAAGTACTTGTCAAGAAAGTGATTCTACTTGGGGGAGAGGGTGTCACCGTGGTTACAGGACGGTAGGTGGAGTCCATCCTTGCAGGGAGTATTTTAATCCTGGACATTGTTTGAACTTCTGTCTGATGGCAATAGGCAAGAGCAAACTGACTTGTAGGTTGCTTCATTGTTAGTAACTCTTTTCAGACAGCACACACCACACACACACACACACACACACACACACACATACACACACAGACACACACACACCTTATTAACCATATATGGGCTGAACTTTCCCACTGGACCACGACTTTAGGAAATGAACCTTCTTGTTATGGTGTTGGTGTTAGGGTTTCAAGGGACTTTTCTATACATTAGTTTCGTTTACTATGCGATTTGTTTAAATTGGTTAAAAATGTGTAGGCTGTTTTAAAACACAAGCCAGGACACTAAGAAATAAGATAGTTATGTCTAAATTAGAGGTTGCACGGGAGGTAACTTAAATACATGCCTCCCCCTCCCACTAGACAAGATTTCTTTATGCAGCCCTGGCTGTCCTAGAAGTCACTCTGTAGACCAGGTTGGGCTCGAGCTCACAGAGCTCCACTTGCCTCTGCTTCCCAAATGCTGTGATTAAAGGTGTGCACCACCCCTGCCCTGCTGGATACATAACTTTTTTGATGATTTGTTCATGAATACACTTATGGAGTTAAATGTGTCTCCTTAAACTTGGAGGCTGCTTTAATGATTGACCTCGGCCTCAGATTGGTAATCACTCACTTGATTCATAGTAAGGCAGCGTTTTTCTCCACAG
Seq C2 exon
ACAAAACCTTAAGGTGGTTTGACGGAGCAGCCACAGAGCAGTCAAACTGGGGCGTACGGAAGCCAGACATGGACCACCTCAAGCCCCATCCGTGTGTTGTCCTGAGGATCCCTGAAGGAGTATGGCAGTCTACCCCATGCGAAGACAAAACGGGATTCATTTGTAAAGTGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008129:ENSRNOT00000011003:27
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=0.017
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(35.1=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(50.5=93.3)
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:
CTTTTGGCAATCAAGGATGAGGC
R:
CTGCTTCCACTTTACAAATGAATCCC
Band lengths:
286-1461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]