MmuINT0012260 @ mm10
Intron Retention
Gene
ENSMUSG00000020473 | Aebp1
Description
AE binding protein 1 [Source:MGI Symbol;Acc:MGI:1197012]
Coordinates
chr11:5865017-5865310:+
Coord C1 exon
chr11:5865017-5865088
Coord A exon
chr11:5865089-5865199
Coord C2 exon
chr11:5865200-5865310
Length
111 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
AGAATCTGCCTCCCCCATAGTTG
3' ss Score
5.65
Exon sequences
Seq C1 exon
AGCCAGAGGAGGAGACTGAGATGCCCACACTGGACTACAATGACCAGATAGAGAAGGAGGATTACGAGGATT
Seq A exon
GTAAGTAGGGCCCTCCACATGGGCATGGACTAGACTCTGGCCTGGGCACTGAGGGGTCAACCTGCAGCCCACTCAGCATGGCTGGCTGCTCAGAATCTGCCTCCCCCATAG
Seq C2 exon
TTGAGTACATCCGTCGCCAGAAGCAGCCCAGGCCAACACCCAGCAGGAGGAGGCTCTGGCCAGAGCGCCCTGAGGAGAAGACTGAAGAGCCAGAGGAAAGGAAGGAAGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020473:ENSMUST00000102923:4
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=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAGAGGAGGAGACTGAGA
R:
TCCTTCCTTTCCTCTGGCTCT
Band lengths:
178-289
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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