MmuINT0012249 @ mm9
Intron Retention
Gene
ENSMUSG00000020473 | Aebp1
Description
AE binding protein 1 [Source:MGI Symbol;Acc:MGI:1197012]
Coordinates
chr11:5768300-5768622:+
Coord C1 exon
chr11:5768300-5768384
Coord A exon
chr11:5768385-5768477
Coord C2 exon
chr11:5768478-5768622
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
AGAGGCCTGCTTCTCTCTAGACC
3' ss Score
5.76
Exon sequences
Seq C1 exon
TGACGACTTCGTGACTACCTTCTTTGTGGGCTTCAGCAATGACAGCCAGACCTGGGTGATGTACACCAATGGCTACGAGGAAATG
Seq A exon
GTGGGTGCCCGAGAGCTGCTCGGCTCTCACGTTTGGACCTGGGAGGACCCTTGGGAGGGGCAGGCTGGGACCCAGAGGCCTGCTTCTCTCTAG
Seq C2 exon
ACCTTCTATGGAAATGTGGACAAGGACACACCTGTGCTGAGCGAGCTCCCTGAGCCAGTTGTGGCCCGTTTCATCCGCATCTATCCACTCACCTGGAACGGTAGCCTGTGCATGCGCCTGGAGGTGCTAGGCTGCCCCGTGACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020473-Aebp1:NM_009636:12
Average complexity
IR-S
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=FE(20.1=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=PD(29.5=83.7)
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:
CCTTCTTTGTGGGCTTCAGCA
R:
CTACCGTTCCAGGTGAGTGGA
Band lengths:
172-265
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: