RnoINT0109557 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187117099-187117584:-
Coord C1 exon
chr2:187117456-187117584
Coord A exon
chr2:187117312-187117455
Coord C2 exon
chr2:187117099-187117311
Length
144 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TGCCTACTCCCATCTCACAGGCA
3' ss Score
9.11
Exon sequences
Seq C1 exon
GCTGCCCATCAAGAATGTTTGGTGTCAACTGCTCCCAGCTATGTCAGTGTGATCCTGGAGAGATGTGCCACCCAGAGACTGGGGCTTGCGTCTGTCCCCCAGGACACAGTGGTGCGCACTGCAAAGTGG
Seq A exon
GTGAGTTCTTAGACCCTTTGGCCCTCGTTTCCTCCTAGGCTCTGGGACCCAGGGCCCTTGTACCATCTCTGTCTTCCTTAAAATGCACTCAACTTCACTAGAAGAACAAAGGTGCCCGTCTCAATGCCTACTCCCATCTCACAG
Seq C2 exon
GCAGCCAGGAGTCCTTCACCATAATGCCCACCTCTCCTGTGATCCATAACTCACTGGGTGCCGTGATTGGCATTGCAGTGCTGGGGACCCTTGTGGTGGCCCTGGTAGCACTGTTTATTGGCTACCGACACTGGCAAAAGGGCAAGGAACATGAGCACTTGGCAGTGGCTTACAGCACTGGGCGACTGGATGGCTCCGATTACGTCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:19
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=0.028
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(72.5=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(25.0=13.9)
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:
ACTGCTCCCAGCTATGTCAGT
R:
ATGTTCCTTGCCCTTTTGCCA
Band lengths:
254-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]