MmuALTA0012659-5/5 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000022283 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:MGI Symbol;Acc:MGI:1349722]
Coordinates
chr15:36528960-36530443:-
Coord C1 exon
chr15:36530348-36530443
Coord A exon
chr15:36529002-36529171
Coord C2 exon
chr15:36528960-36529001
Length
170 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
ATGTTTCTCATCCCCTGAAGAAG
3' ss Score
4.41
Exon sequences
Seq C1 exon
GGTGTGAACCTTTATGTGAAAAATCTTGATGACGGGATTGATGATGAGCGTCTCCGGAAGGAGTTTTCTCCGTTTGGTACAATCACCAGTGCAAAA
Seq A exon
AAGCCACTAAAGCAGTTACAGAGATGAATGGTAGAATTGTGGCCACGAAGCCACTGTATGTAGCTTTAGCTCAGCGCAAAGAAGAGCGCCAGGCTCACCTCACTAACCAGTATATGCAGAGGATGGCAAGTGTACGAGCTGTGCCCAACCCCGTGATCAACCCCTACCAG
Seq C2 exon
CCAGCACCTCCTTCAGGTTACTTCATGGCAGCTATCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022283-13-18,13-17,13-16,13-15,13-14-5/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(40.6=87.5)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTGAACCTTTATGTGAAAAATCT
R:
CTGTGGGATAGCTGCCATGAA
Band lengths:
138-308
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: