HsaALTD0004536-2/3 @ hg38
Alternative 5'ss
Gene
ENSG00000070756 | PABPC1
Description
poly(A) binding protein cytoplasmic 1 [Source:HGNC Symbol;Acc:HGNC:8554]
Coordinates
chr8:100721391-100721886:-
Coord C1 exon
chr8:100721734-100721886
Coord A exon
chr8:100721729-100721733
Coord C2 exon
chr8:100721391-100721619
Length
5 bp
Sequences
Splice sites
5' ss Seq
TGAGTAGTT
5' ss Score
-6.37
3' ss Seq
TCTCCTCCTCTCACGGAAAGGTC
3' ss Score
6.45
Exon sequences
Seq C1 exon
CCGAGACCGACCCGCCCGCCCGCGGCCCCGCAGCAGCTCCAAGAAGGAACCAAGAGACCGAGGCCTTCCCGCTGCCCGGACCCGACACCGCCACCCTCGCTCCCCGCCGGCAGCCGGCAGCCAGCGGCAGTGGATCGACCCCGTTCTGCGGCC
Seq A exon
GTTGA
Seq C2 exon
GTCGCGGCCTGTGGCCCTGCGGGCAGCCGTGCCGAGATGAACCCCAGTGCCCCCAGCTACCCCATGGCCTCGCTCTACGTGGGGGACCTCCACCCCGACGTGACCGAGGCGATGCTCTACGAGAAGTTCAGCCCGGCCGGGCCCATCCTCTCCATCCGGGTCTGCAGGGACATGATCACCCGCCGCTCCTTGGGCTACGCGTATGTGAACTTCCAGCAGCCGGCGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000070756-4-6,5-6,6-6-2/3
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
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
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
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development