MmuINT0113252 @ mm10
Intron Retention
Gene
ENSMUSG00000030162 | Olr1
Description
oxidized low density lipoprotein (lectin-like) receptor 1 [Source:MGI Symbol;Acc:MGI:1261434]
Coordinates
chr6:129499880-129502180:-
Coord C1 exon
chr6:129502079-129502180
Coord A exon
chr6:129500126-129502078
Coord C2 exon
chr6:129499880-129500125
Length
1953 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
CTTAATTCTCTCTGGTTTAGTAC
3' ss Score
7.25
Exon sequences
Seq C1 exon
GTCTGCATTTGCTTTCTTCCCCATGGTGGTTCCCTGCTGCTATGACTCTGGTCATCCTCTGCCTGGTGTTGTCAGTGACCCTTATTGTACAGTGGACACAAT
Seq A exon
GTAAGTGCTGAAATAGGGAACTGGAGTGGGCAATGAGGGTTATGAACACAGCACACAACAACTCAGATCAGCCTAGCTTTACATTCATTTTAGGCTAAATCTTTGAGTATTAATGAGTATACTGTGCTCATTCCTCCATTAGAGAGGGGAATGGGATGGAGACTACTAACAGCAGAATGCTTTTGTTTTGCTTCATGTTTCATGGAGGAGCTTAGTTATATCTTAGAATAATTTGGTAATAACTTGAAGTTTCTAATACATAGGGCTATCTGAGCAACCCAAGAGGAAAAGAAATCCCATTTACTTTTGTTTTGATAGATCTGGTACATTTTTAAGAATTATAATGGCCCCTTAAAAGATATGTAAAACACAGAGAGCAAGATGTATGTTGAGTTTATAACACGTAGGAAAGTAGAGATGCTGAGAAGGAAAAAGAAGTTAGAATGGGGGCAAGAATGGCTAAGAAGGAAAGATAATATTTTCTCTGCATCAACTAGCATGAGCAGGTTGCCAGTCTGAGTAGTTCCACCAGCCATGGTCCAAGATATAAGGACTCAAAAGTACCATTTGCTTCCCATATGTCTAGTTATCTAACTCCTTGTAATTGGGGGAAGTGGTACGTGGGGACTTGAGACCTCTCCAACTGATTGTTCAGGGCAAATAGCCCACTCGATGGCAGCAGTCAGAAGAATCTTCCTTTGAGGTATCCATCACTATCCAGCAGGCTCAGATTTGGCCTAAAGGCAAAGAATCAGCAGCCCCTTGCTTGTACTGGAAGAGAGCTGAGATCCTAGAACAGTTTCTTCAAATCCATTCAATTGCACAACATTCGTTTTGTCTCCACCCTCCTAAAAAACAACAAGAAGAAAAAATTACTTTCACTGCCAACATACAGAAATGTACAAATATTTCATGGGTGGTTGTCTCAAAAATGAAGGCAAATGTCAAAGTTCCTAAATAAAATTAGGAAGTCTGGCAGTGTAGACAGTGGGAGGAGCTATAGAGAAATTAAACTGACTAACTCGCTAATAGCAATTTCTTCTATGAGTTAGAGTCTAGGGAAAAGGTGACTATTATAGACTGCCAATATTTTATTTATTCTATTATAGTATTTCTTATCTTATCATTACTTTAATTCTTTTATTTTACAATTTTATGTTTTGAGGAATTTCAAGCACGTACATAATGCATTTTGATCAAACTCATCCCCATTTTCTTCATTTCATTTCCTCCCCACCCACCCATAACCCTTTCCTCTGAATTTCATGTGCTCTGGTTTTTCTTTTTAAGCCCATTGACTACTCAATGCTGGCTGTATGTATCTGGTATAGGGCCCTCTGCTGGAGCATAGGTAATCTCACAAGGGACACATCCATAAAGAAAACTGACTCTCCTTTTCCAGGATCCATCAATTGCCAATAGCTCCTCAACTAGAGGTGAGATTTGATGACTGCATGCTCATCCATTGTCTTTACCTTATTATTTTCAAGCTAAATATAGCTTGTGCACTCTGCACGCTGACCAAATCTTCTGCCACAGAGGGACATCACAACTCCTCATCCCTCTGCCAGGGCTACATCTCCACCCCTCCCCCCATGCCACTAAGCTACATCTCTATCCCTCACCACTCTGCCTCTAGGCTATACTATCATCTCTCAAAAAAACACAGAAGCATGGCACTTTTTATTCAGAAACATCTGCATGATCACTGGTAAAATTGCAATTTTGAAAAATACAGTTGAATAACATATTAGCCCATAAATTGTGAATAAACGAGGGCCATTTCCCGGAAGTCAATGAAGTGCATTTAGTCCTCCATCATTATTAAAGTTCAGAAGACATTTTCTGTCAACACTGATCTGTGGTCAAGATAGATTGTTTGAGTTGGTGTCTTTATTTTCTGGGCATCCAGGGGCAGCAGGCTAGAATGACTCTTAATTCTCTCTGGTTTAG
Seq C2 exon
TACGCCAGGTATCTGACCTCTTAAAACAATACCAAGCGAACCTTACTCAGCAGGATCGTATCCTGGAAGGGCAGATGTTAGCCCAGCAGAAGGCAGAAAACACTTCACAGGAATCAAAGAAGGAACTGAAAGGAAAGATAGACACCCTCACCCAGAAGCTGAACGAGAAATCCAAAGAGCAGGAGGAGCTTCTACAGAAGAATCAGAACCTCCAAGAAGCCCTGCAAAGAGCTGCAAACTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030162:ENSMUST00000032265:2
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=0.739
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GTCTGCATTTGCTTTCTTCCCC
R:
GCTCTTTGCAGGGCTTCTTGG
Band lengths:
334-2287
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