RnoINT0109553 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187119068-187119399:-
Coord C1 exon
chr2:187119297-187119399
Coord A exon
chr2:187119215-187119296
Coord C2 exon
chr2:187119068-187119214
Length
82 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CCCTTAGTTGTCTCCTACAGGCA
3' ss Score
9.05
Exon sequences
Seq C1 exon
AAGGGACAGTTTGGTGAAGGTTGTGCCAGTGTCTGTGACTGTGACCACTCCGATGGCTGTGACCCTGTTCATGGACACTGCCGATGTCAGGCTGGCTGGATGG
Seq A exon
GTGAGCATTCTGGGTTGTCTAGGTCCCAGGTCTGCTGTGGAGTTGTACTCCACAGGAGATGACCCTTAGTTGTCTCCTACAG
Seq C2 exon
GCACACGTTGCCACCTGCCTTGCCCAGAGGGCTTTTGGGGAGCCAACTGCAGCAATGCCTGTACCTGCAAGAATGGTGGCACTTGTGTACCTGAGAACGGCAACTGTGTGTGCGCACCAGGGTTCAGAGGCCCCTCCTGCCAGAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:15
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:
PF0005319=Laminin_EGF=PU(50.0=65.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(47.8=44.0)
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:
AAGGTTGTGCCAGTGTCTGTG
R:
ACAAGTGCCACCATTCTTGCA
Band lengths:
173-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]