MmuALTA1009829-6/6 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000022283 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:MGI Symbol;Acc:MGI:1349722]
Coordinates
chr15:36599231-36601409:-
Coord C1 exon
chr15:36601315-36601409
Coord A exon
chr15:36599247-36599477
Coord C2 exon
chr15:36599231-36599246
Length
231 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
ACTTTCTTTTTTCTTTATAGGTA
3' ss Score
12.83
Exon sequences
Seq C1 exon
GGCCTGCCTTAAGTGTGAAAGTAATGACAGATGAAAGTGGAAAATCCAAAGGATTTGGATTTGTAAGCTTTGAAAGGCATGAAGATGCGCAGAAA
Seq A exon
GTAATGATGGAGGGTGGGCGCAGCAAAGGGTTTGGTTTTGTATGTTTCTCATCCCCTGAAGAAGCCACTAAAGCAGTTACAGAGATGAATGGTAGAATTGTGGCCACGAAGCCACTGTATGTAGCTTTAGCTCAGCGCAAAGAAGAGCGCCAGGCTCACCTCACTAACCAGTATATGCAGAGGATGGCAAGTGTACGAGCTGTGCCCAACCCCGTGATCAACCCCTACCAG
Seq C2 exon
CCAGCACCTCCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022283-31-29,31-28,31-26,31-25,31-24,31-23-6/6
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(44.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(56.5=42.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types