MmuINT0113072 @ mm10
Intron Retention
Gene
ENSMUSG00000026833 | Olfm1
Description
olfactomedin 1 [Source:MGI Symbol;Acc:MGI:1860437]
Coordinates
chr2:28212532-28214828:+
Coord C1 exon
chr2:28212532-28212687
Coord A exon
chr2:28212688-28214608
Coord C2 exon
chr2:28214609-28214828
Length
1921 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGA
5' ss Score
9.78
3' ss Seq
AGCTTATTTTAACCTTGCAGGCA
3' ss Score
7.74
Exon sequences
Seq C1 exon
GTGCAAAACATGTCTCAATCCATAGAAGTCTTGGACAGGCGAACTCAGAGAGACCTGCAGTACGTGGAGAAGATGGAGAACCAGATGAAAGGCCTGGAGACCAAGTTCAAGCAGGTGGAGGAGAGCCATAAGCAGCATCTAGCCAGGCAGTTCAAG
Seq A exon
GTACGAGGCCCCTCGAGATTCTCCTCTTCCTCCCTCCCCTTCTCCCTCTCCCTTCTCCTCCTCTCCCCTTCTCTCTCCCTCCCTACTTCCTCCTCCTCCAAGTCAGAGGACTTTCTTTTCCCTTCTCACTTCCCTTTCCCCACAGAGGTAGTGCTCAGGGGCCTGGGGATTGTTCATCCAGCAAGGATTGTTCTCTGTCTTGTAAAGCCGTGCCCCTCTGGGAGCAGAGAGGCCACCCACTCCAGCCACCGAAGGGGGTAGGGCTTGGTCACACCCTGGCCCCTCTCTCCCTCCTCATCAGCCAGTAGGAAACAGGGGTCCCAAGCCTCCTGCTCCTCTAACTGAGGCATGTTAGCTGGGCAGCATCATTAGAGGCCCTGGGCATTCCACAGCTGCTGTAGGTAAATCACATTAGCCAGGGATTAGCTTAATTGATTAGAGCCATTTCTGGGCCCTGATCACTCAGGGCAGTTTTTCACTTCTGACCTAATTTTAGCTGTGACAAGGCACACTGTAGACGCAGCTGCATTAAGTGTTCTGCGTCTCCGTGTTACCCTGGCCGTTAAAAGCTCACTTCCTTTGACCTGAAATTATATATATACATATGTACAAGTATGTATATATACACGACTCTCCACTAGGACTGGGCTGGAAATTATCTGCCACCTTAATTAAGGTGTTCATGCATGTTAATTAGGAATCAGGCCCAGATGTAAATGAACAGGTCAAATTACAGGGCCGCTTGGCTGGAAACTGCTAAGTGTGGCTAGGTCCTCCCTTCCTCTCATGCTAATGTTATCCTTTGATGCACTCCCTGCGAGAAGCAGGAACTACTACTCCTTTTTAACGCGGTACATTAGGTAGGCAAAATGGCAAGCTAATGAAGTTATAAATCTGCGTTATAAATAAAATAATAGCAGGCGGATCCCACTGAAGCAAAATAAGCGTCGATTCTTGTCCCAGGCAGGGAAAGGCTGTGCCTGCCCCTTTGCCATCATGACTTTACCTTGGCAAGAGATTTTGACCTTACAGACCAAAAAGAGTTTGTTTCTGTCCTGGCCAGCATCTGTCCTCCTGTGCTCGGCAGACTGTGAAGACAGAAGTGTCTTCAGTGACATGAGGTAGCTCCCCTTGGAGAGAGTCATCTACACGGCACCCTCTGAGATCCAAAGTTGGGGTCTCTGAGACTTTGGGACAGCAAAAGCAAGCCCTTGCCTTTTACGCTATAGTCACTGCATGAAGGTATCTTAGCAGAAACCTTGAGGGATCCCCATCACCATCTGAGTAACTTGTTTTACTATGATTAAAGTGTGATTTTTCTTAAGTGACCGTGCAAATATATGTCTTTTAATGGCTGTTTGAGGCAGGCTAGTGAGCTAGCTTTTCAACGGTGTTTCATTTTCTTGCTTGCAGGGCTAACTTAAAGAGTTTTTTCAATGCGCCAGTGACTGAAGAAGCAGTCCCCCATGTAACCATGAGAGAGCCAGAGAGCTTTTTGCACCATGCATTTTTACGATTCTTTTCCAGTCCTTAGCGCCATTTCACTAAGGAGCCTTGAATCCAGCCAGGATCCTCCTTTTGCATGCGACTCTAGATGCATCCCATGAATAGTTTGAACCCTTGTCAATGCACTTTTTGAAAAAGAAAGAAAAAAAAAACCCACAAACTTTGTGTATGTGACCTAAAGCATGTAACTTTAAGATGCTGCATTCTCAACTGACAAATAAAGGCCTTTCCCAAATATTGTGGTGTTCTGAGGACTGTTTAATACGCTCTCCTGACTCACTGGGACCCGATAACTGACGGATTGCTAAAACGGGACTGTGCACACCTTCCCTCTCGTAGGGAGAAGCCAGGCCAAGGCAGGGTATTTCAAGTTTTTGCATGCATCGCACTGAACCAGCTTATTTTAACCTTGCAG
Seq C2 exon
GCAATAAAAGCGAAAATGGATGAACTTAGGCCTTTGATTCCTGTGTTGGAAGAGTACAAGGCCGATGCCAAATTGGTATTGCAGTTTAAGGAGGAGGTCCAGAATCTGACGTCAGTGCTTAACGAACTGCAAGAGGAGATTGGCGCCTATGACTACGATGAACTTCAGAGCAGAGTGTCCAATCTTGAAGAAAGGCTCCGTGCATGCATGCAAAAACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026833:ENSMUST00000028177:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.277 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123083=Noelin-1=FE(50.5=100),PF0154011=Lipoprotein_7=FE(48.1=100),PF093255=Vps5=FE(63.0=100)
A:
NA
C2:
PF123083=Noelin-1=PD(0.1=0.0),PF101864=Atg14=FE(41.7=100),PF138741=Nup54=PD(56.8=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATAGAAGTCTTGGACAGGCG
R:
CATGCACGGAGCCTTTCTTCA
Band lengths:
343-2264
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