HsaINT0122912 @ hg19
Intron Retention
Gene
ENSG00000187800 | PEAR1
Description
platelet endothelial aggregation receptor 1 [Source:HGNC Symbol;Acc:33631]
Coordinates
chr1:156878708-156879706:+
Coord C1 exon
chr1:156878708-156878828
Coord A exon
chr1:156878829-156879542
Coord C2 exon
chr1:156879543-156879706
Length
714 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
CTACCAGGCCCCTCCTCCAGGTT
3' ss Score
7.11
Exon sequences
Seq C1 exon
GGCCCTCACTGTGCTAGTCTTTGTCCTCCTGACACCTACGGTGTCAACTGTTCTGCACGCTGCTCATGTGAAAATGCCATCGCCTGCTCACCCATCGACGGCGAGTGCGTCTGCAAGGAAG
Seq A exon
GTAATAGGGTGGAGTTTCCCAGAGAGAAGACTTGGGGGATGGCCAAGGGAAGAAGGGAGAGTCCAAGAGTATGGGTGGGCCAAGGGCAGGGGAGCGGCTGCAGGGTAAGGGTGGAGGGGCAGCAGCTGGACACAGGGAAAGTATCCAGGCTACTTTCTTCCTGGAATATCCACTTTGCTTTTCTTCAACCACAAAGATCCTACCTGTCCTTAAAGGCTGAGGCCAAAAGCCACCTCACTGGCGAACGTCCCTCACCCTCAGTCATACGGAAACACAATTACCATGCTGGGAAGGGCCTCACATCTGCCAGAGTGACACATTGGCAACCTTTAGGCTGGACTCGGATACAGTTGTGCTTTGTTTGGCTAACAAGTCTCCCATCTTCAGTCCCCACTACTCCCTGTTGTCTGGCACATCCTCTGTATAAGTCATTTAGTTACCTGATGGGGCCCCTGTAAACATTTGGGTTTAGTGCCATCCCCTTTATTTTGCAGAAGGCACCCCAGACCCAGAATGGGGTGGTACCTCACTGGAAGGCAGTTAGCCTTCTGCTCCGCATCAAATAACTCATAAGCTTTTCTCCTGTATGGTGCCGTGAACACCCCCCACCCACCCCAGCTCATAGCATAGAATCTGGCCCAGCCAGCTCCCACTGTGTGCTTGCTCAGGAAGGGAAATGGGTCCCCATACCTACCTACCAGGCCCCTCCTCCAG
Seq C2 exon
GTTGGCAGCGTGGTAACTGCTCTGTGCCCTGCCCACCCGGAACCTGGGGCTTCAGTTGCAATGCCAGCTGCCAGTGTGCCCATGAGGCAGTCTGCAGCCCCCAAACTGGAGCCTGTACCTGCACCCCTGGGTGGCATGGGGCCCACTGCCAGCTGCCCTGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187800-PEAR1:NM_001080471:11
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=7.3)
A:
NA
C2:
NO
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:
GGCCCTCACTGTGCTAGTCTT
R:
GGTGCAGGTACAGGCTCCAG
Band lengths:
246-960
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)