MmuINT0012629 @ mm10
Intron Retention
Gene
ENSMUSG00000015452 | Ager
Description
advanced glycosylation end product-specific receptor [Source:MGI Symbol;Acc:MGI:893592]
Coordinates
chr17:34599076-34599476:+
Coord C1 exon
chr17:34599076-34599255
Coord A exon
chr17:34599256-34599345
Coord C2 exon
chr17:34599346-34599476
Length
90 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TCATGCCTGTCCCCACCCAGAGC
3' ss Score
7.45
Exon sequences
Seq C1 exon
AAACACTCGTGAAGGAAGAGACCAGGAGACACCCTGAGACGGGACTCTTTACACTGCGGTCAGAGCTGACAGTGATCCCCACCCAAGGAGGAACCCATCCTACCTTCTCCTGCAGTTTCAGCCTGGGCCTTCCCCGGCGCAGACCCCTGAACACAGCCCCCATCCAACTCCGAGTCAGGG
Seq A exon
GTGAGTAGGGAGGGAGGCAAGAGTCAATCCCAGGGCCATCAAGGCTGGCTACCAGGTGTCCTGATGGACTTCATGCCTGTCCCCACCCAG
Seq C2 exon
AGCCTGGGCCTCCAGAGGGCATTCAGCTGTTGGTTGAGCCTGAAGGTGGAATAGTCGCTCCTGGTGGGACTGTGACCTTGACCTGTGCCATCTCTGCCCAGCCCCCTCCTCAGGTCCACTGGATAAAGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015452:ENSMUST00000015596:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.574 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF082057=C2-set_2=PD(50.5=78.7)
A:
NA
C2:
PF138951=Ig_2=PU(43.4=81.8)
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:
GACGGGACTCTTTACACTGCG
R:
AACCAACAGCTGAATGCCCTC
Band lengths:
178-268
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