Special

RnoINT0109555 @ rn6

Intron Retention

Gene
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187117690-187118897:-
Coord C1 exon
chr2:187118772-187118897
Coord A exon
chr2:187117819-187118771
Coord C2 exon
chr2:187117690-187117818
Length
953 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CAGCCCCTTGTCTCCTGTAGCAT
3' ss Score
7.44
Exon sequences
Seq C1 exon
CCTGCCCGCCTGGTCGCTATGGCAAACGCTGTGTGCCCTGCAAGTGCAACAACCATTCTTCCTGCCACCCGTCGGATGGGACCTGCTCCTGCCTGGCAGGCTGGACAGGCCCTGACTGCTCTGAAT
Seq A exon
GTGAGTAGCATTTGTGTGGGGCAGTGTGCCTGCTGCTTGGGTTCCTGCACTCTGGCACCTCTCCTGGCCCTGGGCAGAAAGCCTCTCTCTCTCTGTCACCTGTACCATAGGGAAGAGCCTGCTGTCCCCTTTAGGCCGGGTACCAGTGTTAGTGGGCAGATGTGGCAGTGAGCAAGTCAGAGGGGAAGATCGCCTGCCCTTTAGCATGGGGAGCCTGGAAAGAGCTAGGTGTTTTTGGAACAGCAAACCCCCAAAGTTCCCTCTTGGAGATATTTTCTCTTCCTTTTTAAAACATTCTAAGCTATTAGTCTTTGGAAATTTCATACACATATACCACGGGTCTTGATTAAATCCTACTTTCCCTCATGCCCCCCAAAATGTCTTCCTCCCACCACATGTCCACTCCTTTTCATAACCTACTGAGTCCAGCCTGTTTGCCGGGCTGTGGCCTGGAACGTGGGTCCTCCTACTCAGTGTGGCAGCCTCCTAACTTTCTCACGCTATCTTTACTATGTGTCATCTCCTGCTAACTCTAGGATGAGAAAGAAGTGGCTGGCCTTAGGCAGCAGGTGAAGCACGCTTCAAAGGGAGTGGGAAACTATGGCCCAGATAGAGCTAACTGTGCCTCCAGGAGGCAGGGCATAAAGGAAGTCATCTTGTCCAAGGGTTTTGTTTTATTTTGCATAGAAAAAAAAAGACAAGGCCAGCGCTAAGCCCTCCAGGGGCAGTAGGGAAGCCTCCAATTCCCCTGCACTGGGTACATTATTTTGTTAAAGTCAAGTGCAGATGTCAAGTGGGTCGTGTGGGTCAGCTGGCTGGAGATGAACATTAGAGTCATCAGTGTGGAAATGCCCCTCGGAGCCTTCGTATCTCCAAGAGGCAGCCAGGCTGAAGACTCAGAGATACTGAGGGGGATGGCCAGGCCTTGCCTGACAGCCCCTTGTCTCCTGTAG
Seq C2 exon
CATGTCCCCCAGGCCACTGGGGACTCAAATGCTCCCAACCCTGCCAGTGTCATCATGGTGCCACCTGCCACCCCCAGGATGGGAGCTGTGTCTGCATCCCAGGCCGGACTGGACCCAACTGCTCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:17
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(63.0=67.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.8=36.4)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGTCGCTATGGCAAACG
R:
CTTCCGAGCAGTTGGGTCCAG
Band lengths:
247-1200
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]