MmuALTD0009866-2/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000011257 | Pabpc4
Description
poly(A) binding protein, cytoplasmic 4 [Source:MGI Symbol;Acc:MGI:2385206]
Coordinates
chr4:122966253-122967581:+
Coord C1 exon
chr4:122966253-122966375
Coord A exon
chr4:122966376-122966456
Coord C2 exon
chr4:122967442-122967581
Length
81 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTATCCGTGGTTTCTCGTAGGTT
3' ss Score
8.57
Exon sequences
Seq C1 exon
ACCCAAGAGGCCGCCGACAAGGCCATCGAGAAGATGAATGGCATGCTTCTCAATGACCGTAAAGTGTGAGTGTCCCAGTCTGGAGCAACAACCATCGCATGAGCCAGCCATGGCCCCACCTCG
Seq A exon
GTATTAACTGGCACACACAAGGCGGCTACTGGTTCTCTCGGCCCAAGTGTGGCCTGCTCCTACCTCTCCACTCCAGGGCTG
Seq C2 exon
GTTCGTGGGTAGATTCAAGTCTCGCAAAGAGCGGGAAGCGGAGCTTGGAGCCAAGGCCAAGGAATTCACCAATGTTTATATCAAAAACTTTGGAGAAGAGGTGGATGATGGGAATCTGAAAGAGCTCTTCAGCCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000011257-8-12,9-12-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PD(1.4=2.1),PF0007617=RRM_1=PU(31.4=45.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
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:
CGACAAGGCCATCGAGAAGAT
R:
TGAATTCCTTGGCCTTGGCTC
Band lengths:
177-258
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: