MmuINT0012624 @ mm9
Intron Retention
Gene
ENSMUSG00000015452 | Ager
Description
advanced glycosylation end product-specific receptor [Source:MGI Symbol;Acc:MGI:893592]
Coordinates
chr17:34737440-34737877:+
Coord C1 exon
chr17:34737440-34737566
Coord A exon
chr17:34737567-34737651
Coord C2 exon
chr17:34737652-34737877
Length
85 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GCAACACTGTTCCTTCTCAGGAA
3' ss Score
7.23
Exon sequences
Seq C1 exon
GCTCTGTGGGTGAGTCTGGGCTGGGTACGCTAGCCCTGGCCTTGGGGATCCTGGGAGGCCTGGGAGTAGTAGCCCTGCTCGTCGGGGCTATCCTGTGGCGAAAACGACAACCCAGGCGTGAGGAGAG
Seq A exon
GTGAGTGAGAGCCTGCAGGTTCCAGGCAGCAGGTGAGGGCTGTCAGAGAGGGGCAGCCGAATGCCGCAACACTGTTCCTTCTCAG
Seq C2 exon
GAAGGCCCCGGAAAGCCAGGAGGATGAGGAGGAACGTGCAGAGCTGAATCAGTCAGAGGAAGCGGAGATGCCAGAGAATGGTGCCGGGGGACCGTAAGAGCACCCAGATCGAGCCTGTGTGATGGCCCTAGAGCAGCTCCCCCACATTCCATCCCAATTCCTCCTTGAGGCACTTCCTTCTCCAACCAGAGCCCACATGATCCATGCTGAGTAAACATTTGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015452-Ager:NM_007425:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF066977=DUF1191=FE(37.5=100),PF0240410=SCF=FE(45.7=100)
A:
NA
C2:
PF066977=DUF1191=PD(25.0=84.8),PF0240410=SCF=PD(27.2=75.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
GGGCTATCCTGTGGCGAAAAC
R:
CATCACACAGGCTCGATCTGG
Band lengths:
167-252
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: