HsaALTA0006025-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein cytoplasmic 1 like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr20:44932342-44933185:+
Coord C1 exon
chr20:44932342-44932432
Coord A exon
chr20:44933057-44933071
Coord C2 exon
chr20:44933072-44933185
Length
15 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TGTGGTGTCTGCACCACAAGCTG
3' ss Score
0.73
Exon sequences
Seq C1 exon
CCTCCAGCCCAGGCTGCATACTATGGCTGTGGCCCAGTGACACCCACCCAGCCTGCCCCCAGGTGGACATCCCAGCCACCTAGACCTTCCT
Seq A exon
CTGCCTACCCTCCAG
Seq C2 exon
GTGCCTCAATGGTCCGGCCACCAGTTGTGCCTCGGCGCCCCCCGGCCCACATCAGCAGTGTCAGGCAGGCCTCCACCCAGGTGCCACGCACGGTGCCTCATACCCAGAGAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104-20-37,20-36-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=0.989
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGCTGCATACTATGGCTG
R:
CACAACTGGTGGCCGGAC
Band lengths:
112-127
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