RnoINT0109548 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187121638-187122071:-
Coord C1 exon
chr2:187121935-187122071
Coord A exon
chr2:187121851-187121934
Coord C2 exon
chr2:187121638-187121850
Length
84 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GTACATAACCCGGGACCCAGGTG
3' ss Score
0.45
Exon sequences
Seq C1 exon
GGTGTCATCTGTTCCCTGCCATGCCCAGAGGGTTTCCACGGACCCAACTGTACTCAGGAATGTCGTTGCCACAATGGTGGCCTTTGTGACAGGTTTACTGGGCAGTGCCACTGTGCTCCTGGCTATATCGGGGATCG
Seq A exon
GTGAGTGTGTGGCCCTAGGGAGTTGGAGTGGACCTGGAGGTGGTGGCACTGAGTTTATACAGCTGTACATAACCCGGGACCCAG
Seq C2 exon
GTGCCGTGAAGAGTGCCCTGTGGGCCGCTTCGGTCAAGACTGTGCTGAGACCTGTGACTGTGCTCCTGGCGCTCGTTGCTTTCCTGCCAATGGCGCGTGTCTGTGCGAACATGGCTTCACAGGCGACCGCTGCACTGAGCGACTCTGTCCAGATGGCCGCTATGGTCTGAGCTGCCAAGATCCCTGCACCTGCGACCCAGAACACAGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:10
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:
PF126612=hEGF=PU(84.6=23.9)
A:
NA
C2:
PF126612=hEGF=PD(7.7=1.4),PF0005319=Laminin_EGF=WD(100=61.1),PF0005319=Laminin_EGF=PU(19.6=12.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTGGCTATATCGGGGAT
R:
ATCTGGACAGAGTCGCTCAGT
Band lengths:
177-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]