HsaINT0122915 @ hg19
Intron Retention
Gene
ENSG00000187800 | PEAR1
Description
platelet endothelial aggregation receptor 1 [Source:HGNC Symbol;Acc:33631]
Coordinates
chr1:156880026-156880535:+
Coord C1 exon
chr1:156880026-156880172
Coord A exon
chr1:156880173-156880409
Coord C2 exon
chr1:156880410-156880535
Length
237 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGG
5' ss Score
4.17
3' ss Seq
CATGTACCCCTTTCCCCCAGCCT
3' ss Score
7.11
Exon sequences
Seq C1 exon
GTGCCCGCTGCCACCTGTCCTGCCCTGAGGGCTTATGGGGAGTCAACTGTAGCAACACCTGCACCTGCAAGAATGGGGGCACCTGTCTCCCTGAGAATGGCAACTGCGTGTGTGCACCCGGATTCCGGGGCCCCTCCTGCCAGAGAT
Seq A exon
GTGAGGCTCCCTACTGCCCCTTCCACCTGCCACCAGCAGGGGGCAGTGTAGTGTCAGCTGCCAGAGCACCCCTCCCCCCGCGCCCGCCGCCCACCTCTCCCACCTTACCCCCGGTCTCTTCCTCTGACCCGTCTTCAGACTAGTTACTGCAGTGGGAAGGTGGGAGGGAGACGGTGGGGTAAGGGCTGATTGAGGATTGGCCTCTGCCCCCAATCACCATGTACCCCTTTCCCCCAG
Seq C2 exon
CCTGTCAGCCTGGCCGCTATGGCAAACGCTGTGTGCCCTGCAAGTGCGCTAACCACTCCTTCTGCCACCCCTCGAACGGGACCTGCTACTGCCTGGCTGGCTGGACAGGCCCCGACTGCTCCCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187800-PEAR1:NM_001080471:14
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=PD(23.1=6.0),PF0005319=Laminin_EGF=PU(72.3=68.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(25.5=27.9),PF0005319=Laminin_EGF=PU(65.9=67.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCACCTGTCCTGCCC
R:
GAGCAGTCGGGGCCTGTC
Band lengths:
261-498
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)