HsaINT0121527 @ hg19
Intron Retention
Gene
ENSG00000174788 | PCP2
Description
Purkinje cell protein 2 [Source:HGNC Symbol;Acc:30209]
Coordinates
chr19:7697602-7698570:-
Coord C1 exon
chr19:7698293-7698570
Coord A exon
chr19:7697717-7698292
Coord C2 exon
chr19:7697602-7697716
Length
576 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CTGAGCGAGTCTGTCCCCAGGCG
3' ss Score
4.07
Exon sequences
Seq C1 exon
AGGTCGCCCTGCCCCCTACCCACCATGCCAGATCCAGCATCGTTGTGGGCAAACAATTATCTGGATGATCTTTATGGGGCTTAAGCTTGGGTGGGAGCAGATGGGGCATGAGCTGGGGATTTGGGGATGGGGGGAATCCACACCCCCACGTCCTGGACGTTTAAAAGGCCCTCTCTGGCACTGGGCCGGGGCAGAGGCCAGCAGAAAAGTGACTGGAGTCCAGGGACATGATGGATCAGGAGGAGAAGACGGAGGAAGGCTCAGGCCCCTGTGCCGAG
Seq A exon
GTGAGAGGGCCCTGCCCCCACCCCACCCCCAGCTCAAGGTCTCAGAGCCCATGATTGACAAGACTAGTTTGTAGGGCACCTAATTAACGAGTGAGTCTCCTAGGACCCCCTGACCCAGTTGTGGCTGTAGAAAGGGGCTGGTGGGCTTGGGGGTCTGAGTGCCAGGCCCCAGGGCAGAGGGCAGGGCTCTCCGTGTGGACCCCTATTGATGGGAGATGCTGGGACCTGGGGGTAGCTCCTGGGCCATGTTTCCCTGATTCGTGTCCCAGCTCCCAGGCCACACTCATCAGGCCCCAATCTAGGACGGCGGGACACGCATCGGAGCCTGTCCCTTGAAGCGGTACCACGTGAAGTGGCACTGCTGGCCAGGGCCCCTGGGGCGGGGGCCGGGATTGGGAAGGAGACTCATGTCTCATTCAGAACAGCTCTGCAGAGAGGATCGGCGGGGACCATGGTGAGAGCTGAGGAAGTGGGGACGGCAGGCCCCGGGGTCAGGGTGTGAGCAAGCTGGCTAGGAAGTTTGGGGAGGGGCCCCCAAGCTGAAGGGCCAACCAGACTGAGCGAGTCTGTCCCCAG
Seq C2 exon
GCGGGCTCCCCAGACCAGGAGGGCTTCTTCAATCTGCTGAGCCACGTGCAGGGCGACCGGATGGAGGGACAGCGCTGTTCACTGCAAGCCGGGCCGGGCCAGACCACCAAGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000174788-PCP2:NM_174895:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218812=GoLoco=WD(100=59.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCCACCATGCCAGATCCAG
R:
GTGAACAGCGCTGTCCCTC
Band lengths:
344-920
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)