MmuINT1026155 @ mm10
Intron Retention
Gene
ENSMUSG00000011257 | Pabpc4
Description
poly(A) binding protein, cytoplasmic 4 [Source:MGI Symbol;Acc:MGI:2385206]
Coordinates
chr4:123295750-123296057:+
Coord C1 exon
chr4:123295750-123295836
Coord A exon
chr4:123295837-123295929
Coord C2 exon
chr4:123295930-123296057
Length
93 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGTA
5' ss Score
-1.91
3' ss Seq
GACCCTGTTCTCTCCACAAGGCG
3' ss Score
6.06
Exon sequences
Seq C1 exon
GGTCTGAGTGCCCGGACCGCTTGGCTATGGACTTTGGTGGGGCTGGTGCCGCCCAGCAAGGGCTGACTGACAGCTGCCAGTCTGGAG
Seq A exon
GTGGTATTGGATGCACACAGAAGGGGGAAAGCTGGGATTTGACGGGCCCTTGCCCAGGCTGACATGCCTTAATGACCCTGTTCTCTCCACAAG
Seq C2 exon
GCGTCCCTACAGCCGTGCCAAACCTTGCACCTCGGGCCGCAGTTGCTGCCGCCGCTCCCAGGGCTGTGGCTCCATACAAGTACGCCTCCAGTGTCCGCAGCCCACACCCTGCCATCCAGCCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000011257:ENSMUST00000080178:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.576
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCGCTTGGCTATGGACTTTG
R:
GGACACTGGAGGCGTACTTGT
Band lengths:
168-261
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