HsaALTD0004536-1/3 @ hg19
Alternative 5'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein, cytoplasmic 1 [Source:HGNC Symbol;Acc:8554]
Coordinates
chr8:101733619-101734114:-
Coord C1 exon
chr8:101733962-101734114
Coord A exon
NA
Coord C2 exon
chr8:101733619-101733847
Length
0 bp
Sequences
Splice sites
5' ss Seq
GCCGTTGAG
5' ss Score
-29.11
3' ss Seq
TCTCCTCCTCTCACGGAAAGGTC
3' ss Score
6.45
Exon sequences
Seq C1 exon
CCGAGACCGACCCGCCCGCCCGCGGCCCCGCAGCAGCTCCAAGAAGGAACCAAGAGACCGAGGCCTTCCCGCTGCCCGGACCCGACACCGCCACCCTCGCTCCCCGCCGGCAGCCGGCAGCCAGCGGCAGTGGATCGACCCCGTTCTGCGGCC
Seq A exon
NA
Seq C2 exon
GTCGCGGCCTGTGGCCCTGCGGGCAGCCGTGCCGAGATGAACCCCAGTGCCCCCAGCTACCCCATGGCCTCGCTCTACGTGGGGGACCTCCACCCCGACGTGACCGAGGCGATGCTCTACGAGAAGTTCAGCCCGGCCGGGCCCATCCTCTCCATCCGGGTCTGCAGGGACATGATCACCCGCCGCTCCTTGGGCTACGCGTATGTGAACTTCCAGCAGCCGGCGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-2-6,3-6,4-6-1/3
Average complexity
Alt5
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(73.2=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGATCGACCCCGTTCTG
R:
TAGAGCGAGGCCATGGGGTA
Band lengths:
102-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)