MmuINT0012250 @ mm10
Intron Retention
Gene
ENSMUSG00000020473 | Aebp1
Description
AE binding protein 1 [Source:MGI Symbol;Acc:MGI:1197012]
Coordinates
chr11:5868475-5868816:+
Coord C1 exon
chr11:5868475-5868619
Coord A exon
chr11:5868620-5868730
Coord C2 exon
chr11:5868731-5868816
Length
111 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
GTATGCCGGCTCTCCTGCAGCTG
3' ss Score
7.76
Exon sequences
Seq C1 exon
ACCTTCTATGGAAATGTGGACAAGGACACACCTGTGCTGAGCGAGCTCCCTGAGCCAGTTGTGGCCCGTTTCATCCGCATCTATCCACTCACCTGGAACGGTAGCCTGTGCATGCGCCTGGAGGTGCTAGGCTGCCCCGTGACCC
Seq A exon
GTGAGTGAAGAGGGGAGGGGGGCTGCCTGTGGTTTTGGGGGTAGCTGCATATGATTTGGATATGGAGCAAAGGGCAACTGATCCAGGCCCTGTATGCCGGCTCTCCTGCAG
Seq C2 exon
CTGTCTACAGCTACTACGCACAGAATGAGGTGGTAACTACTGACAGCCTGGACTTCCGGCACCACAGCTACAAGGACATGCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020473:ENSMUST00000102923:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PD(29.5=83.7)
A:
NA
C2:
PF0024619=Peptidase_M14=PU(0.6=6.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTCTATGGAAATGTGGACAAGG
R:
GCATGTCCTTGTAGCTGTGGT
Band lengths:
226-337
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