MmuINT0114434 @ mm9
Intron Retention
Gene
ENSMUSG00000022283 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:MGI Symbol;Acc:MGI:1349722]
Coordinates
chr15:36527728-36528067:-
Coord C1 exon
chr15:36527957-36528067
Coord A exon
chr15:36527883-36527956
Coord C2 exon
chr15:36527728-36527882
Length
74 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
CATTCCAGAATATGCCCGGTGCTATCCGCCCAGCTGCTCCTAGACCACCATTTAGTACGATGAGACCAGCTTCCTCACAGGTTCCACGAGTCATGTCAACACAGCGTGTTG
Seq A exon
GTGAGTCTTAAACCTCTCTGTAAAGATTGATCCCCAATTTAAAATGGCACAATTAAAGTCATTTTTCTCTTTAG
Seq C2 exon
CTAACACATCAACACAGACAATGGGTCCACGTCCTGCAGCTGCTGCTGCTGCAGCCACTCCTGCTGTCCGCACCGTTCCCCAGTATAAATATGCTGCGGGAGTCCGCAATCCCCAGCAACATCTTAATGCACAGCCACAAGTTACCATGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022283-Pabpc1:NM_008774:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACCAGCTTCCTCACAGGTT
R:
AAGATGTTGCTGGGGATTGCG
Band lengths:
174-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: