HsaALTA1005274-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100704304-100705673:-
Coord C1 exon
chr8:100705589-100705673
Coord A exon
chr8:100704391-100704414
Coord C2 exon
chr8:100704304-100704390
Length
24 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCATTCCTTTCCTGAACCAGTTT
3' ss Score
5.88
Exon sequences
Seq C1 exon
CCTGCTGTTCATGTACAAGGTCAGGAACCTTTGACTGCTTCCATGTTGGCATCTGCCCCTCCTCAAGAGCAAAAGCAAATGTTGG
Seq A exon
TTTATCTGTTTTCCCCTTTTTTAG
Seq C2 exon
GTTGATGAAGCTGTAGCTGTACTACAAGCCCACCAAGCTAAAGAGGCTGCCCAGAAAGCAGTTAACAGTGCCACCGGTGTTCCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-78-69,78-68-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.835 A=NA C2=0.715
Domain overlap (PFAM):
C1:
PF0065813=PABP=PU(27.8=69.0)
A:
NA
C2:
PF0065813=PABP=PD(11.1=22.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
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:
TTGACTGCTTCCATGTTGGCA
R:
CAGCCTCTTTAGCTTGGTGGG
Band lengths:
104-128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains