RnoINT0109554 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187118772-187119214:-
Coord C1 exon
chr2:187119068-187119214
Coord A exon
chr2:187118898-187119067
Coord C2 exon
chr2:187118772-187118897
Length
170 bp
Sequences
Splice sites
5' ss Seq
GGCGTGAGG
5' ss Score
1.66
3' ss Seq
CCATGTGTCCCTTTCCTCAGCCT
3' ss Score
7.7
Exon sequences
Seq C1 exon
GCACACGTTGCCACCTGCCTTGCCCAGAGGGCTTTTGGGGAGCCAACTGCAGCAATGCCTGTACCTGCAAGAATGGTGGCACTTGTGTACCTGAGAACGGCAACTGTGTGTGCGCACCAGGGTTCAGAGGCCCCTCCTGCCAGAGGC
Seq A exon
GTGAGGCTCACTAGACCCCAGCCCCTCCTGTTAGCAGTTCAGACTTGGGAGCCCCCTTCCACCCTGCGGGTTTGGCCCAACTCTCATCTCCAGGATAGTTATTCCAGTGGGAAGTGGGTAGGGAGGGCCTGGTCAAGGGTCTCCCAGTCACCATGTGTCCCTTTCCTCAG
Seq C2 exon
CCTGCCCGCCTGGTCGCTATGGCAAACGCTGTGTGCCCTGCAAGTGCAACAACCATTCTTCCTGCCACCCGTCGGATGGGACCTGCTCCTGCCTGGCAGGCTGGACAGGCCCTGACTGCTCTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:16
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=PD(47.8=44.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(63.0=67.4)
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:
CTTTTGGGGAGCCAACTGCAG
R:
ATTCAGAGCAGTCAGGGCCT
Band lengths:
242-412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]