RnoINT0109559 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187116845-187117311:-
Coord C1 exon
chr2:187117099-187117311
Coord A exon
chr2:187116934-187117098
Coord C2 exon
chr2:187116845-187116933
Length
165 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACCTGTGTTTGTCCTGCAGATG
3' ss Score
12.01
Exon sequences
Seq C1 exon
GCAGCCAGGAGTCCTTCACCATAATGCCCACCTCTCCTGTGATCCATAACTCACTGGGTGCCGTGATTGGCATTGCAGTGCTGGGGACCCTTGTGGTGGCCCTGGTAGCACTGTTTATTGGCTACCGACACTGGCAAAAGGGCAAGGAACATGAGCACTTGGCAGTGGCTTACAGCACTGGGCGACTGGATGGCTCCGATTACGTCATGCCAG
Seq A exon
GTGAGCTGGCGTGAGGCTTAAGTGACTGATGGGTAGCGGGGTACTGCTGAGTATGCCCCCCGTGGGATGTGGGGTGGAAGAATGGAGGGAACAGGGAGGGTAAACTGCTGTTGCCCCAGCCTCGTCCTGTCTCTGAGCTACCTGGCACCTGTGTTTGTCCTGCAG
Seq C2 exon
ATGTCTCTCCGAGCTACAGTCACTACTATTCCAACCCTAGCTACCACACACTGTCTCAGTGTTCTCCTAACCTTCCACCCCCTAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.300
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(25.0=13.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATAACTCACTGGGTGCCGTG
R:
GGGGGTGGAAGGTTAGGAGAA
Band lengths:
251-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]