MmuINT0012252 @ mm9
Intron Retention
Gene
ENSMUSG00000020473 | Aebp1
Description
AE binding protein 1 [Source:MGI Symbol;Acc:MGI:1197012]
Coordinates
chr11:5769068-5769613:+
Coord C1 exon
chr11:5769068-5769191
Coord A exon
chr11:5769192-5769416
Coord C2 exon
chr11:5769417-5769613
Length
225 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TGTGGCTCCTGTCTTTGCAGGGG
3' ss Score
10.66
Exon sequences
Seq C1 exon
CTGATGAAGGCTGTCAATGAGGAGTGCCCCACAATCACTCGCACATACAGCCTGGGCAAGAGTTCACGAGGGCTCAAGATCTACGCAATGGAAATCTCAGACAACCCTGGGGATCATGAACTGG
Seq A exon
GTGAGAGCCCGGGGTCATTTTTTTTTTGCCAATGGCCAGAGCACCAGGGTCCTGCACTGCTGTGCTCCTGCTGGGCCTGTACAGTGGATATGCCTGCCACACTCACCATCTCCTGCCTGACCTGGACACCCCAGGAGATCCAGGCTTGCCTTGCTGAGCACCACAAGCCTCATTGCCCCCAGGCCTCGCCAGGCTCAGTGCCTGCTGTGGCTCCTGTCTTTGCAG
Seq C2 exon
GGGAGCCCGAGTTCCGCTACACAGCCGGGATCCACGGCAATGAGGTGCTAGGCCGAGAGCTCCTGCTCCTGCTCATGCAATACCTATGCCAGGAGTACCGCGATGGGAACCCGAGAGTGCGCAACCTGGTGCAGGACACACGCATCCACCTGGTGCCCTCGCTGAACCCTGATGGCTATGAGGTGGCAGCGCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020473-Aebp1:NM_009636:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(12.5=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(19.9=100)
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:
AAGGCTGTCAATGAGGAGTGC
R:
CATAGCCATCAGGGTTCAGCG
Band lengths:
298-523
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: