HsaALTA0006018-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100721734-100722749:-
Coord C1 exon
chr8:100722698-100722749
Coord A exon
chr8:100721887-100721889
Coord C2 exon
chr8:100721734-100721886
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
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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