MmuALTD1008155-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000022283 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:MGI Symbol;Acc:MGI:1349722]
Coordinates
chr15:36597973-36598304:-
Coord C1 exon
chr15:36598206-36598304
Coord A exon
chr15:36598202-36598205
Coord C2 exon
chr15:36597973-36598127
Length
4 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
AAAGTCATTTTTCTCTTTAGCTA
3' ss Score
6.49
Exon sequences
Seq C1 exon
AATATGCCCGGTGCTATCCGCCCAGCTGCTCCTAGACCACCATTTAGTACGATGAGACCAGCTTCCTCACAGGTTCCACGAGTCATGTCAACACAGCGT
Seq A exon
GTTG
Seq C2 exon
CTAACACATCAACACAGACAATGGGTCCACGTCCTGCAGCTGCTGCTGCTGCAGCCACTCCTGCTGTCCGCACCGTTCCCCAGTATAAATATGCTGCGGGAGTCCGCAATCCCCAGCAACATCTTAATGCACAGCCACAAGTTACCATGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022283-45-35,46-35-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.860
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGCTGCTCCTAGACCACCATT
R:
CGTGGACCCATTGTCTGTGTT
Band lengths:
107-111
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