RnoINT0159660 @ rn6
Intron Retention
Gene
ENSRNOG00000008616 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:RGD Symbol;Acc:1565257]
Coordinates
chr3:56277885-56280123:+
Coord C1 exon
chr3:56277885-56278064
Coord A exon
chr3:56278065-56279913
Coord C2 exon
chr3:56279914-56280123
Length
1849 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ACTACTTTTGGATGTTTTAGGCT
3' ss Score
7.63
Exon sequences
Seq C1 exon
GAAGAAGAGGAATTTTCAGTCCTTGCCAGCTGCCTGGGACTTCTGCCAACTTTTTACCAAACAGATCACCCATTCATCAGTGCCTCGTGTCTGGACTGGCCAGTTGCAGCATTTGACATTATAACTCAGTGGTGTTTTGAGATAAGATCATTTACAGAGAGGCATGCAGAACAAGGGAAG
Seq A exon
GTATGTAGAAAGAGTGGGGACAATGTGCTTCGAGGGAGGTGACCAATGGAAGAAGTCAAATTTAGGTCATTGGTGACAGCAGGTTTTAAACTGATAAAGTTGAAATAATATTTGAGTTATAAGTAGTAAAAAAAAAAGCAGAAATATTTGACTTAAAAAGTGTATTAGTTGTTACTTTTAGCTTAAGTTTTAATTAATGATTTTAATTAAATCATTTAAGCATCCGTTATAGTATCGTTGGAAAATAAAAAAAATTAAAGTTAATAAATAATATTCTTAATTGTAGAGCTGTCTCCTGTTTAAATGTATTTGATATGAAAACTAAAAGATTATATCTGTAACACTTAAATGTGGGTTTGTGCTGCCAGCTTGGTTGGTAAAGGGTTGTGGTGACCAATGACTGAGAGTGGAGGCAGGCAGCAGGCTAGTGCCTTGCCATGATTCTGTACAGCCTTCATACAATGGGAACCTTATTTCACAGGGTCCTCTGTTGACCTTTTAGTAGACAAGGTAAGACGATACATCCCCAGGTTGTTCAGAGGTGAAGAGAGTCCAGACTACTTTTCTGATTGTAGAAGTCAGAAAGTAACTATTGCAAGAGTCATTTGAGAGGAACACATAGCCTTGGTGACTTCTGATCTCAGATGATATCATTGCATGTTCTAGTTCTTGTGGAACATGTTCTTGCTGTGTCTAATTGACTGGGTCCCCACTTGGCGGTCAAGAGACATCACCATCTTGTTTGTGTTTCCATTGTTGTTATACCATGAATCTGCCACCTTGCTCTATTTGACACAAATATGTGTAAGTGTACTGCAGCCATTAAGGTGTATGTGAGCTTGCCTACTGCTGCTGCTTCTGTCCCTAGCAGCAGCACTGTCTTCTGTGCAGTTCATTGCTTTTTAGGCCTTGCCTCTTCCAGCGGAATTGTCTGCTAGCCAGTCTTCTTTTCAGCCCAACCTCTCCATCTCTGCTGCTGCACCTCTCTATAAGCATTGCTGTAGTTATGGACAGGAGTCAGCCCAGAGCCTCGTGTGATGAGCTCTGAATCCCCAAGTGTCACAGAGCTTAGCTTCTTTTTATCACATTTGTTTCTTTAATGTAATGAAGACTTCACAAAACAAAAATTCTTATTTTTCTTGTAATTCCCCAATTCATAGAAAGTGTTTCATAGAAATTAGTTAGCTAATAAATATATGGAATTATAGTGTGAATGGAGTAATATCTAGAAAAACATCACCAGTACCTTTTTACAACTGCAAATAGCAAATAGAACTTGCCCTGCAGGAAGTGTTAGCTTGGAGTTCCCATACCTAGACAGGAAGTTTATTCAAAGAGTTTCAGGCCTTTAGCACTTACGGATACAAATGATCTTGATAGCCTGAGGTATATGAACATAGCATATTCTAGGAGGGAGGGAGAATTCGTGTAAAGCATTAAAATAGGAATAATGACTTATGGCTCTGACTTGTGCTAAGGAGAAGGTGAAGAATCATATATATTACAGGTCAGGATCTGGTGTCGGGAAGTGTTTGATATTTTGCATGTTTAGAGATTTATTTTCATGCATGTTCAGGGATACTTTTTTCTTTCTTAAAATAATAAATGTGTTTTAGTGTGCTTATTCTATAAAGTTTTACATCTGCTATAATTGAGATCTATATGGAAATAAAGAATAATAATTGCTAATGGGCTGTTTTCGTCAAATGGAAAAAGAAATATTTTTAATAAATAACTCACATTCTTGAAAGCCAATTTTTCATCCTAAAATAAAATCATTTTAAAATTTGAATATATAATTTTGGTATCCTGTTTATGTAGGGCTGATGACTACTTTTGGATGTTTTAG
Seq C2 exon
GCTTTGCTAATCCAAGAGTCAAGATGGAAATTACCACACCTGTTACAGCTGCCCGAGAATTACAACACTATTTTTCAGTACTACCACAGAAAAACCTGCAGTGTCTGCACCAAGGTTCCTAAAGACCCAGCTGTTTGTCTTGTGTGTGGCGCCTTCGTCTGCCTGAAAGGCCTGTGCTGCAAGCAGCAGAGCTACTGTGAATGTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008616:ENSRNOT00000011380:36
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:
NO
A:
NA
C2:
NO
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:
TTTTCAGTCCTTGCCAGCTGC
R:
CTTGCAGCACAGGCCTTTCAG
Band lengths:
351-2200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]