RnoINT0109565 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187124695-187125506:-
Coord C1 exon
chr2:187125345-187125506
Coord A exon
chr2:187124800-187125344
Coord C2 exon
chr2:187124695-187124799
Length
545 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCCCTGACCTGTTCCCACAGCTT
3' ss Score
9.66
Exon sequences
Seq C1 exon
ATGTGTCCTTCCGGCTGCTGGCTGCAGTGCTGTTCTGTTGTTGGGTGCCCTGTGGCAGGCTTGTGCAATGCCACTCTGTCCCCTCCTCCTCCTGGCCCTAGGCCTGCGTCTGGCTGGAACACTCAACTCCAATGATCCCAATGTCTGTACCTTCTGGGAAAG
Seq A exon
GTGAGAAGGGCCCAAGCTTGATGCTCATCCCACAGGAGTGCCTCCTCCTGGGAATCTGTTTCTGGTCTCTGTGCACCCTCGGTGGTGTTTGATCTTCCCCACCTCTGCCCTTGTCTCATTTCTGTCCTGTCTGTGATACCCATCGCTCCCTGTCTTTGTCCCCGGGTTCCTGTGAGTGAGAGGGAGCCATTCATTGTAGGTGAAGCAGAGGTGCTGGCTGCGGGAAGGTAGGGACAGGACAGGAAAACAGGGCCCTGGGCAGAAGCTAGCCAAAAGTGCTTCAATCACTACCGGCAGGGTCCAGACAAGTTCAAAGTTTCCACACTGGGAGGGATACATGTGTGTGTAAGGCTTTGGCTCTTAGGAAAAGAAATAGCTCTGGTAGGAGGAGTCCTAGAACATTCCAGTTCTAGAAGCCTCTACACAAGATGTACCCAGTAGGAGGAAGACCAAGTACTGGGGTACTGATCTCCACGTGGTAAAGCCTGGCCATGGCTTTCTGCTGCACATCTCAGGCTGTCCTTGCCCCTGACCTGTTCCCACAG
Seq C2 exon
CTTCACCACGACCACTAAGGAGTCCCACCTTCGCCCCTTCAGCCTGCCCCCAGCCGAGTCCTGCGACAGGCCCTGGGAAGACCCCCACACCTGCGCTCAGCCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF075468=EMI=PU(12.2=28.1)
A:
NA
C2:
PF075468=EMI=FE(47.3=100)
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:
ATGTGTCCTTCCGGCTGCT
R:
TAGGCTGAGCGCAGGTGT
Band lengths:
266-811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]