MmuINT0012623 @ mm10
Intron Retention
Gene
ENSMUSG00000015452 | Ager
Description
advanced glycosylation end product-specific receptor [Source:MGI Symbol;Acc:MGI:893592]
Coordinates
chr17:34597862-34598247:+
Coord C1 exon
chr17:34597862-34597945
Coord A exon
chr17:34597946-34598140
Coord C2 exon
chr17:34598141-34598247
Length
195 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGA
5' ss Score
4.74
3' ss Seq
ACAATGATGCTATCACCCAGGAG
3' ss Score
3.75
Exon sequences
Seq C1 exon
AGACAGAACCTGGAGCCTGGGAAGGAAGCACCATGCCAGCGGGGACAGCAGCTAGAGCCTGGGTGCTGGTTCTTGCTCTATGGG
Seq A exon
GTGAGACACTCCCAGCCCCAACTCTCCCCCTCAGCAGCCCTGCTCCCACCCCACCCCCAGTACCTCCCTGCCCCCTAGAAATCCCCCTGAACCTGGGCACCACTTTCCAAAGACCCTCACCCACCCTGTCCTACACACGCACACCCCAGCCCCACCTCTCCCCTTCCACCCTCCCACAATGATGCTATCACCCAG
Seq C2 exon
GAGCTGTAGCTGGTGGTCAGAACATCACAGCCCGGATTGGAGAGCCACTTGTGCTAAGCTGTAAGGGGGCCCCTAAGAAGCCGCCCCAGCAGCTAGAATGGAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015452:ENSMUST00000015596:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.146
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138951=Ig_2=PU(34.0=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACAGAACCTGGAGCCTGG
R:
TTTCCATTCTAGCTGCTGGGG
Band lengths:
188-383
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