HsaEX0050672 @ hg19
Exon Skipping
Gene
ENSG00000121390 | PSPC1
Description
paraspeckle component 1 [Source:HGNC Symbol;Acc:20320]
Coordinates
chr13:20251864-20304484:-
Coord C1 exon
chr13:20304379-20304484
Coord A exon
chr13:20279802-20279971
Coord C2 exon
chr13:20251864-20251963
Length
170 bp
Sequences
Splice sites
3' ss Seq
GTATAGATTGTTTTACATAGATG
3' ss Score
3.28
5' ss Seq
GTGGTAATG
5' ss Score
4.46
Exon sequences
Seq C1 exon
ACATGAAGAGGAGCATCGGCGGCGTGAGGAAGAAATGATCCGACACAGAGAACAGGAGGAACTGAGGCGACAGCAAGAGGGCTTTAAGCCAAACTACATGGAAAAT
Seq A exon
ATGCGTTTAGCCCAGCCCCTGCTGGTAACCAAGGTCCTCCTCCAATGATGGGTATGAATATGAACAACAGAGCAACTATACCTGGCCCACCAATGGGTCCTGGTCCTGCCATGGGACCAGAAGGAGCCGCAAATATGGGAACTCCAATGATGCCAGATAATGGAGCAGTG
Seq C2 exon
GGTGATAAAAGAAAATGTGGCTGAAGTTACCCGAAGTTCAGCTTGCAGTGTAATTCAGAAGAGTTAAGACCAGAAGTACTGGAATCATACTTCCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121390_MULTIEX1-2/3=C1-C2
Average complexity
ME(2-3[97=100])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.931 A=1.000 C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGAAGAGGAGCATCGGC
R:
AGTACTTCTGGTCTTAACTCTTCTGA
Band lengths:
186-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)