HsaINT0121529 @ hg19
Intron Retention
Gene
ENSG00000174788 | PCP2
Description
Purkinje cell protein 2 [Source:HGNC Symbol;Acc:30209]
Coordinates
chr19:7696507-7697403:-
Coord C1 exon
chr19:7697279-7697403
Coord A exon
chr19:7696695-7697278
Coord C2 exon
chr19:7696507-7696694
Length
584 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGACCCCTCTTCATCCACAGGAC
3' ss Score
11.96
Exon sequences
Seq C1 exon
AGAGCGACCCCACCCCCGAGATGGACAGCCTCATGGACATGCTGGCCAGTACCCAGGGCCGCCGCATGGATGACCAACGTGTGACAGTCAGCAGCCTGCCCGGCTTCCAGCCCGTGGGGTCCAAG
Seq A exon
GTAGGTGATGTTCTGGCGATGTCGAGGAGAAACCCGCCAGGCAGTGCTCTCCGATCCTGCCCTCCACCCCAGCCAGGAGGGAACAGGGCCTGCCCCATCTCTGTCCATCCGCTGCCCTGACTTCAGATGGGAGGACCAAGGCCCAGGCAGTGGCTAGAGGGGCCCAAGGTTATACAGGGGCCATGCTAGTGTAAGACCCATGGCTGGAACTTGTGGCTCCTGCCCCCAAGTCTGAAGGTTCTGGGGAGGCCAAAGGGAGAAAATAGGACCCCTTCCTAGGAAAGTATCCCAGGGAGGAAGTCACGTAAGCTCACACATAGGATATATACATCTGTATACTCACATCTGTTGACTTCACACATACACGAAGCTTGGGTTCTGATCAAGATCCCAGCGAGGGCCCCAAGACCTGCCACCTCACACTCAAATGCCACCCTAAATGGCAGATATTGAGGGTAAACATAGACCAGTGCTCACAATGAGGTGGGACACGGTGGCTACCTGCACCCTCTCTCCATTGTTCGCCACCTGTGGCCGGCACTGCCCTTGAGCCCTCCCCCTGGCTGACCCCTCTTCATCCACAG
Seq C2 exon
GACGGAGCACAGAAACGAGCTGGGACCCTCAGTCCCCAACCCCTGCTCACCCCTCAGGACCCGACCGCTCTCGGCTTCCGTCGGAACAGCAGCCCCCAGCCCCCGACACAAGCCCCCTGAGGGCCTGAGGCATCCTGGGTCTCACTCGGCCCCCAAAAACTGATAAAAGAATAAAACACTTAAATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000174788-PCP2:NM_174895:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=54.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GACCCCACCCCCGAGATG
R:
TTATTCTTTTATCAGTTTTTGGGGGC
Band lengths:
294-878
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)