HsaALTA0006018-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein, cytoplasmic 1 [Source:HGNC Symbol;Acc:8554]
Coordinates
chr8:101733962-101734977:-
Coord C1 exon
chr8:101734926-101734977
Coord A exon
chr8:101734115-101734117
Coord C2 exon
chr8:101733962-101734114
Length
3 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGA
5' ss Score
7.22
3' ss Seq
TATAAAATAACCCGGTGAAGCAG
3' ss Score
-3.09
Exon sequences
Seq C1 exon
GCGGCCGACGCGCGTGGCGGCGGTGCCGGCTGGGACTCGTAGTGCGGTCCGG
Seq A exon
CAG
Seq C2 exon
CCGAGACCGACCCGCCCGCCCGCGGCCCCGCAGCAGCTCCAAGAAGGAACCAAGAGACCGAGGCCTTCCCGCTGCCCGGACCCGACACCGCCACCCTCGCTCCCCGCCGGCAGCCGGCAGCCAGCGGCAGTGGATCGACCCCGTTCTGCGGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-0-5,0-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PU(82.5=80.0)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGCTGGGACTCGTAGTG
R:
AAGGCCTCGGTCTCTTGGTTC
Band lengths:
94-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)