HsaINT0122916 @ hg19
Intron Retention
Gene
ENSG00000187800 | PEAR1
Description
platelet endothelial aggregation receptor 1 [Source:HGNC Symbol;Acc:33631]
Coordinates
chr1:156880410-156882167:+
Coord C1 exon
chr1:156880410-156880535
Coord A exon
chr1:156880536-156882038
Coord C2 exon
chr1:156882039-156882167
Length
1503 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGT
5' ss Score
6.12
3' ss Seq
AGGCCCCATGTCTCCCGTAGCAT
3' ss Score
5.74
Exon sequences
Seq C1 exon
CCTGTCAGCCTGGCCGCTATGGCAAACGCTGTGTGCCCTGCAAGTGCGCTAACCACTCCTTCTGCCACCCCTCGAACGGGACCTGCTACTGCCTGGCTGGCTGGACAGGCCCCGACTGCTCCCAGC
Seq A exon
GTATGTGGTAGCTTGTGTGTCTGAGCATACGTGCATGCTGAGAGGGGGTGCTGAGGACGGGAGGTCTCTGTCCCCCAGCTCCTGGGTATAAAAGCCTCTGGGCCCACCTTGAGTAAATATTTACTGGGCACCACCTACATGCTGGGTACTGTTCTAGGTGCTAAGGATGCAGCAGTGAACAGGTCAGGGGGAAAAATTCCTGCCCTTCTGCATGGGAAGCCTGGGAAGAACAGTATTTTTATGGGAGCAGGGGAAATCATAGGCTTAGCTTGGGACATTTTCTCTTGATTTCTTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCTTTCTTTCTTTCTTTTCTTTCTTCTTTCTTTCTTTCCTTTCTTTCTTTTCTTTCTTTCTTTTTCTTTCTTTCTTTCCTTTCTTTTCTTTCTTCTTTCTTTCTTTCTTTTCTTTCTTTCTTTCTTTCCTTTCTTTCTTTCTTTTCTTTCTTCTTTCTTTCTTCTTTTCTCTCCCTCCCTCTCTCTTTCTTTCTTTTTTTTTTTTTTGACACGGAATCTCACTCTGTTGCCCAGGCTAGAGTGCAGTGGCATGATCTCAGCTCCCTGCAACCTCTGCCTCTGGTTTAGTTAATTCTTTTGCCTCAGCCTCCCCAGTAGCTGGGATTACAGGCACACACCACCACAGCAGGCTAATTTTTGTATGTTTAGTAGAGACCCCTGGGGTTTCATCATATTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCATCCGCCTCAGGTGATCTTGGCTTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCGCCCAGCCCTTTTTTTCTTTTGCATTTTTCAGTTTATTTTTATTTATATATTAATAAATACATGTATTTCTTTATTTTATGAGCCTTTCCCCCACAAAAATATATTAAGATCATTGAAAAGATTAGTCCAAAAAAGCCAAGTAAAACGAGTTTGGAAAGAGGAAACAGGCTGTTATGAAGAAGACTGAATTTCAGCTTACCAGCAGGCGGGGTAAAGAAGGAAGTCATCTTGGTGAAGAGTTTTTCCATAGACTCTGGTTACAACTACTATTAGATTATTGCTAGTGTTAGACACACAAAAATAATGCCTTAAACAGGACAGATGTTTACTTCTCTCTTATGTTAAAAACAAAACAAAAATCCATCCGGGGTAGCTTGGAAGCCTTTGGTTGTGTGGCACTGAATACACTATTTTGAAGTGGCTATTAGATAGTCAAGTGCAGATGTTGAGTAGGTAGTTGGACACGTGGGTCTGGAGTTTGGGGGAGAGATGGGGCTGGAAATAATCATTTGTGAGTCATTGGTTGCAGATACTGTTCAAAGCTTTGGTGTGCCCAGGGAGACCAAAGCTGAGCTAAAGGCTTCAGTGATGCTGGGGGCTGAGAGTTCATCCAGGAAAAGCTGTACCTGCCCCACCAGACAGGCCCCATGTCTCCCGTAG
Seq C2 exon
CATGCCCTCCAGGACACTGGGGAGAAAACTGTGCCCAGACCTGCCAATGTCACCATGGTGGGACCTGCCATCCCCAGGATGGGAGCTGTATCTGCCCCCTAGGCTGGACTGGACACCACTGCTTAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187800-PEAR1:NM_001080471:15
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:
PF0005319=Laminin_EGF=PD(25.5=27.9),PF0005319=Laminin_EGF=PU(65.9=67.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(31.8=31.8),PF126612=hEGF=WD(100=29.5)
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:
CTGTCAGCCTGGCCGCTAT
R:
CTTCTAAGCAGTGGTGTCCAGT
Band lengths:
254-1757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)