MmuINT0113256 @ mm10
Intron Retention
Gene
ENSMUSG00000030162 | Olr1
Description
oxidized low density lipoprotein (lectin-like) receptor 1 [Source:MGI Symbol;Acc:MGI:1261434]
Coordinates
chr6:129488084-129488968:-
Coord C1 exon
chr6:129488832-129488968
Coord A exon
chr6:129488200-129488831
Coord C2 exon
chr6:129488084-129488199
Length
632 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AGAGTGCTGTCTTTCCACAGACA
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTCCTTGTCCACAAGACTGGCTCTGGCATAAAGAAAACTGTTACCTCTTCCATGGGCCCTTTAGCTGGGAAAAAAACCGGCAGACCTGCCAATCTTTGGGTGGCCAGTTACTACAAATTAATGGTGCAGATGATCTG
Seq A exon
GTGAGTCATTTGGGGTGACAGCAATGGATTATGGTTGGTAAAAGAAAATGGAGGCTTAGGAATTTGGGGGAGTATCTTATTCAGGTTTTGTTGTTGTTGGTGGTGCTGTTGTTTTGTTTTGTTTTCTGTGAATAAATGTCATGACTATGGCAACTCTTATAAAGGAAATCATTTATTTTGGGCTACCTAACAGTTCAGAGGACTAGTCCTTTGTCAGTGTGTGGAAAGTATGGCAGTACGCAAACAGACATGATTCTGGAGAGGAATTGAGAATTCTATGTCTGGATATACAGACAGCAGGAAGAGAGTGACACTGGACTTGGCTTGAGCTTCTCAAACCTCAAAGCCCACCCCCAGTGACACACTTCCTCCAACAGGGCACATATTCAATTATGCCACTCCCTATGAGACTAAGAGGGCTACTTTCATTCAAACCACCACAGGGAGGAACACTTGTTTGAGAGAGAAAATAGCTGTTTTATAAGCGGATTCCTTACTTGGTCTTGGGAATATAGGATGTGAAGTCTCTATAGACCTTTGTAATCATTTTCATTAAAGCACCAAGGCATGTTGAAAATCTTTTTGCTATTTAGTTTGATGATCTGAAACTCAAGAGTGCTGTCTTTCCACAG
Seq C2 exon
ACATTCATCTTACAAGCAATTTCCCATACCACCTCCCCGTTCTGGATTGGATTGCATCGGAAGAAGCCTGGCCAACCATGGCTATGGGAGAATGGAACTCCTTTGAATTTTCAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030162:ENSMUST00000032265:6
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:
PF0005916=Lectin_C=PU(24.8=56.5)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.2=100)
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:
TTGTCCACAAGACTGGCTCTG
R:
TGAAAATTCAAAGGAGTTCCATTCT
Band lengths:
246-878
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