RnoINT0105262 @ rn6
Intron Retention
Gene
ENSRNOG00000009862 | Olfm1
Description
olfactomedin 1 [Source:RGD Symbol;Acc:620320]
Coordinates
chr3:6780814-6783084:+
Coord C1 exon
chr3:6780814-6780969
Coord A exon
chr3:6780970-6782864
Coord C2 exon
chr3:6782865-6783084
Length
1895 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
AGCTTATTTTAACCTTGCAGGCA
3' ss Score
7.74
Exon sequences
Seq C1 exon
GTGCAAAACATGTCTCAATCCATAGAAGTCTTGGACAGGCGGACTCAGAGAGACCTGCAGTACGTGGAGAAGATGGAGAACCAGATGAAAGGCCTGGAGTCCAAGTTCAGGCAGGTGGAGGAGAGCCATAAGCAGCATCTGGCCAGGCAGTTCAAG
Seq A exon
GTACGCCGTCCTCCGGAGCTCTTGTCCTCCTTCCCTCCCTCATCCCTCCTTTTCCTCCCTCCTCTCCTCTCCTCCTCCAAATCAGACAACTTTCTTTCCCCTCCTGCTTCCCTTTCCCCACAGAGAGGGGCTGTGGTGTTCATGTGCCCAGGGAGCACTGCCCGGGGAGCACTGCAAATTGTTCTCTGCCTTGCAAAACTCTGGTTGTAGAGAGGCCACCAACTCTGGCCACCAAAGGGGGTGGGGCTTGGTCAGCCCCTTTATCATACCCTGGCCCCTCTCTCCTTCCTCATCAACCAGTAGGAAACAGGGGTCCCAAGCCCCCGCTCCTCTAGCCGAGGGGTATTAGCTGGGCTGGGTATCATTAGAGGCCCTTGGCATTCCACAGCTGCCGCAGGTAAATCACATTAGCCAAGGATTAGCTTAATTGATTAGAGCCATTTCTGGGCCCTGATCACTCAGGGCAGTTTTTCACTTCTGACCTAATTTAGCCGTGACAAGGCTCACTGTAGCTGCCGCTGAGTTAAGTTTTCTGCGTCTCCGTGTGACCCTGGCTGTTAAAAGCTCACTTCCTCTGACCTGAAATTATATATACATATGTACAAGTATGTATATATACACGACTCTCCACTAGGACTGGGCTGGGAATTATCTGCCACCTTAATTAAGGTGTTCATGCATGTTAATTAGGAATCGGGCCCAGATGTAAATGAACAGGTCAAATTACACGGCCGCTTGGCTGGAAACCGCTGAGCGCTTCTCTCTCCTCCCTTCCTCTCACACTAATGTCATCCTTTGATGCACTCCCTACGTGAAGCAGGGGCTAATCCTCCTTTTAAAAGTGGTACATTAGGTAGGCAAAATGGCAAGCTAATGAAGTTATAAATCTACGTTATAAATAAGATAATAGCAGGCGGATCCTACTGAGGCCAACTAAGGCTCAGTTCTTGTCCCAGGCAGGGAGACGCCCTGTCCCTTTGCCGTCACGACTTACCTTACAGACCCAAAAGAGTTTGTTTCTGTCCTGGCCAGCATCTGCCCTCCAGTGCTTGGCTGACTGAAGACAGAAGTGTCTTCAGTGACATGTGGTAGCTCCCCTTGGAGAATGTCATCCTCAGAGCACCCTCTGAGATCTAAAGTTGGGGTCTCTGAGACTCTGGGACAGCAAGAGCAAGCAAGCCCTTGCCTTTTAGGCTATAGTCGCTGCATGAAGGGATCTCAGCAGAAACCATGAGGGAGTCCCACACCATCTGAGTAACTTGTTTTACTGTGATTAAAGTGTGATTCTTCTTAAGTGACCATGCAAATATATGTCTTTTAATGGCTGTTTGAGGCAGGCTAGTGAGCTAGCTTTTCAACGGTGTTTCATTTTCTTGCTTGCAGGGCTAACTTAAAGAGTTTTTTCAATGCGCCAGTGACTGAAGAAGCAGTCCCCCCATGTAACCATGAGAGAGCCAGAGAGCTTTTTGCACCATGCATTTTTATGATTCTTTTCCAATCCTTAGCGCCATTTCACTAAGGAACCTTGAATCCAGCCAGGATCCTCCTTTTGCATGCGACTCTAGATGCATCCCATGAATAGTTTGAACCCTTCCTTGTCAATGCACTTTTTGAAAGAGAAAGAAAAAAAAACCCACAAACTTTGTGTATGTGACCTAAAGCATGTAACTTTAAGATGCTGCATTCTCAACTGACTAATAAAGGCCTTTCCCAAATATTGTGGTGTTCTGAGGACTGTTTAATACGCTCTCCTGACTCACTGGGACCCGCTAACTGACGGACTGCTAAGACGGGAGTGTGCACACCTTCCCTCTCGTAGGGAGAAGCCAGGCCGAGGCAGGGTATTTCAAGTTTTTGCACGCATCGCACTGAACCAGCTTATTTTAACCTTGCAG
Seq C2 exon
GCAATAAAAGCGAAAATGGATGAACTTAGGCCTTTGATTCCTGTGTTGGAAGAGTACAAGGCCGATGCCAAATTGGTATTGCAGTTTAAGGAGGAGGTCCAGAATCTGACGTCAGTGCTTAACGAACTGCAAGAGGAAATTGGCGCCTATGACTACGATGAACTTCAGAGCAGAGTGTCCAATCTTGAAGAAAGGCTCCGTGCATGCATGCAAAAACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009862:ENSRNOT00000013443:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.356 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123083=Noelin-1=FE(50.5=100),PF101864=Atg14=FE(29.1=100),PF0154011=Lipoprotein_7=FE(34.7=100),PF138741=Nup54=PU(41.5=94.2)
A:
NA
C2:
PF123083=Noelin-1=PD(0.1=0.0),PF101864=Atg14=FE(41.7=100),PF0154011=Lipoprotein_7=PD(45.6=90.5),PF138741=Nup54=PD(56.8=90.5),PF045087=Pox_A_type_inc=WD(100=28.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATAGAAGTCTTGGACAGGCGG
R:
CATGCACGGAGCCTTTCTTCA
Band lengths:
342-2237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]