HsaINT0122929 @ hg19
Intron Retention
Gene
ENSG00000187800 | PEAR1
Description
platelet endothelial aggregation receptor 1 [Source:HGNC Symbol;Acc:33631]
Coordinates
chr1:156877402-156877843:+
Coord C1 exon
chr1:156877402-156877522
Coord A exon
chr1:156877523-156877706
Coord C2 exon
chr1:156877707-156877843
Length
184 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGG
5' ss Score
6.63
3' ss Seq
TTGACCTCTTATCCCCACAGGGC
3' ss Score
11.97
Exon sequences
Seq C1 exon
CTGTGACGTGTCCTGTTCCCAGGGCACTTCTGGCTTCTTCTGCCCCAGCACCCATTCTTGCCAAAATGGAGGTGTCTTCCAAACCCCACAGGGCTCCTGCAGCTGCCCCCCTGGCTGGATG
Seq A exon
GTATGGAGGGTGGGGCCTGTGGGCATGGGGTGTGGGTCTGGGGAGAATTCTGTGGGTGGTGCTAAGCAGGGCTCCAAGGTGAGTGAGGGGGGTGAGCTCTGTGGTTATGGGGGTGTCAAGGGGTCCTGTGGCCTTGGGGAGGAGGCTGGGTGCCTGGGGCCCTGTTGACCTCTTATCCCCACAG
Seq C2 exon
GGCACCATCTGCTCCCTGCCCTGCCCAGAGGGCTTTCACGGACCCAACTGCTCCCAGGAATGTCGCTGCCACAACGGCGGCCTCTGTGACCGATTCACTGGGCAGTGCCGCTGCGCTCCGGGTTACACTGGGGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187800-PEAR1:NM_001080471:7
Average complexity
IR-S
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=PU(61.5=19.5)
A:
NA
C2:
PF126612=hEGF=PD(23.1=6.5),PF126612=hEGF=PU(84.6=23.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGACGTGTCCTGTTCCCAG
R:
GATCCCCAGTGTAACCCGGAG
Band lengths:
256-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)