MmuEX6106809 @ mm10
Exon Skipping
Gene
ENSMUSG00000054582 | Pabpc1l
Description
poly(A) binding protein, cytoplasmic 1-like [Source:MGI Symbol;Acc:MGI:1922908]
Coordinates
chr2:164027475-164032319:+
Coord C1 exon
chr2:164027475-164027668
Coord A exon
chr2:164031199-164031314
Coord C2 exon
chr2:164032180-164032319
Length
116 bp
Sequences
Splice sites
3' ss Seq
CCTTCCTCCCTGTGACCCAGGTA
3' ss Score
7.65
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
Exon sequences
Seq C1 exon
CGGAACGGGCACTAGACACAATGAACTTTGAGGTGATCAAAGGCCAGCCCATCCGAATCATGTGGTCCCACCGAGACCCAGGCCTTCGGAAGTCTGGTATGGGCAACATCTTTATCAAAAACTTGGAGAATTCCATCGACAACAAGGCTCTGTATGACACCTTCTCTACTTTTGGGAGCATTCTCTCTTCTAAG
Seq A exon
GTAGTATACAATGAACATGGATCGCGGGGTTTCGGCTTTGTGCATTTCGAGACCCACGAGGCTGCCCAGAAGGCCATCAACACCATGAATGGGATGTTGCTGAACGACCGGAAAGT
Seq C2 exon
CTTTGTAGGCCATTTCAAGTCTCGACAGAAGCGGGAGGCAGAGCTGGGGGCTCGGGCCCTCGGGTTCACCAACATCTATGTGAAGAACCTGCACGCGAACGTGGACGAGCAGAGGCTCCAGGACCTCTTCTCCCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054582-'3-6,'3-2,5-6=AN
Average complexity
A_S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
A:
PF0007617=RRM_1=FE(55.1=100)
C2:
PF0007617=RRM_1=PD(1.4=2.1),PF0007617=RRM_1=PU(31.4=45.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGTCTGGTATGGGCAAC
R:
CTGGGAGAAGAGGTCCTGGAG
Band lengths:
244-360
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