RnoINT0109551 @ rn6
Intron Retention
Gene
ENSRNOG00000014243 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:RGD Symbol;Acc:1305653]
Coordinates
chr2:187119490-187121098:-
Coord C1 exon
chr2:187120978-187121098
Coord A exon
chr2:187119654-187120977
Coord C2 exon
chr2:187119490-187119653
Length
1324 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
TACTTGCTTACCCTCTCTAGGTT
3' ss Score
7.94
Exon sequences
Seq C1 exon
GGACCTCACTGCGCTAATCTTTGTCCACCTAACACTTATGGGATCAACTGTTCCTCCCACTGCTCCTGTGAAAATGCCATTGCCTGCTCTCCTGTCGACGGCACGTGCATCTGCAAGGAAG
Seq A exon
GTAATGGACTAGGGAGGGGCAGACTCGGTGCGGTGCTGAGGGCAGAGGTTGGGGTGGGAATGAGGAGAGCACACACAGGGCTGAGCTTATTAGAACGGATTCTGGGAACAGATCCCGGCTAGTTTCTGCTAGAAAACTTCCTTGTCCTCTCTCATTGGTCCCTGATCTGGCTTCCCCCACCCTGTTTTTTTGTTTTATTTGTATTGAGACAGAGTCCCGCTATATAGCCCAGGATAGACTCAAAATCTGAGCACCCGTTGTATTTCAGCCCTCTGGAGTGCTGGTATCACACAGAACACCTTTCCTTCCCTCCCTCCCTCCCTCCCTTCCTTCCTTCTTTCTTTTTTTTAAAAGAATTATTTGTTTTATGTATACAAGAACACTGTAGCCATCTTTAGACACACTAGAAGAGGGCATCAGATCCCATTACAGGGGGTTGGGGATTTAGCTCAGTGGTAGAGTCCTTGCCTAGCAAGCGCAAGGCCCCGGGTTCGGTCCCCAGCTCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAGGTCCCATTACAGATGGTTGTAAGCCACCATGTGGTTGCTGGGAACTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCGAGAACACCTTTCACTACAAATGTCATACTTGTCCCTAAGAGGTACAGACCAGAAGTCTCCGTGGTGAGCGTCTCTCACCCTCAGTTCTATGGAATCATACCATCCCGTGACAGGGAGGGCTTCCAAGGCCCACCCTACGGCATGATGGCAGCCCTTAAGCTGGGTTCAGATCCAGTGGTATCAGATTTAACCAAGCCTCAAGTCTTCAGCCCCCGTTTCTTCCTGTTATCCCACACATGACCTGGTGGGGCCACCACTATGAGCTTGGGTGGTAGGAGAGACAGAGGAGGCCCAGGCAGGATGGGGGAAACAGAGGCAGCTCAAGTGGGGTAGAAGACACTAGAGACTCAGGTGGGGTCAAAGAGATTGTGGAAGTTCAGGCAGAGTAGAAGAGACTGGAGGTCCAAGTGAAGTGGAAGAAACAGAAGGCCCAGGTGGGATGGAGGAAACAGAGGCGGCTCAGGTGGGGTAGAAGACACTGGAGACTCAGGTGGGCTGGCGGAGGCGGCCAGGTTGGGTAGAAGCCATAGGAGGCCAAAGCAATTGAACAGTCAGTGGGAATCTGAATTCAGCCACTGAGCGTGTTCAGCATCTAGAGTCCGTGTGCTCTTCTCATGCCCCGCTCACAGCGTAAAGCTGGCACACCCAGTACCCAGCGGATACTTGCTTACCCTCTCTAG
Seq C2 exon
GTTGGCAGCGTGGTAACTGCTCTGTGCCCTGTCCCCCTGGCACCTGGGGCTTCAGTTGCAATGCCAGTTGCCAGTGTGCCCACGAGGGAGTCTGCAGCCCCCAAACTGGAGCCTGTACTTGCACCCCTGGGTGGCGTGGGGTTCACTGCCAACTTCCGTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014243:ENSRNOT00000019502:13
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:
PF126612=hEGF=PD(23.1=7.3)
A:
NA
C2:
NO
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:
GGACCTCACTGCGCTAATCTT
R:
CACGGAAGTTGGCAGTGAACC
Band lengths:
281-1605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]