RnoINT0109561 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187116418-187116761:-
Coord C1 exon
chr2:187116638-187116761
Coord A exon
chr2:187116493-187116637
Coord C2 exon
chr2:187116418-187116492
Length
145 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TTCTACTTAGCTTTCCTCAGGCA
3' ss Score
2.64
Exon sequences
Seq C1 exon
ATTCCAGGCAGTCAGCTGTTTGTCAGCTCCCAGGCATCTGAGCGGCCAAACAGAAACCATGGGCGAGATAACCACGCCACACTGCCCGCTGACTGGAAGCACCGACGGGAGTCCCATGACAGAG
Seq A exon
GTAGGTGCTTGGAGGCCGAGGCTGAGGTAAATGTGAGCAGCCTCACCTGCTGGATCATCTCGGTGGGGTTGGGGTTGGGGGAGAGCCTGATTCCAGAGGAGGCTTGGGCAGGCCACAGGTCTGACTTCTACTTAGCTTTCCTCAG
Seq C2 exon
GCACCAGCCACCTGGACCGAAGGTATAGCTGTAGCTATGGCCACAGGAATGGCCCGGGGCCATTCTGTCATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.808
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCAGTCAGCTGTTTGTCA
R:
TTTATGACAGAATGGCCCCGG
Band lengths:
194-339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]