RnoINT0159635 @ rn6
Intron Retention
Gene
ENSRNOG00000008616 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:RGD Symbol;Acc:1565257]
Coordinates
chr3:56192383-56193285:+
Coord C1 exon
chr3:56192383-56192472
Coord A exon
chr3:56192473-56193156
Coord C2 exon
chr3:56193157-56193285
Length
684 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
CTAATTCATTTTTTCATTAGGCT
3' ss Score
6.1
Exon sequences
Seq C1 exon
GCTGTGAAATGTCAAGAACTAGATTTGGATTCACTTTTACCGGATCAGGAAATGTTAATGAAACTAATGATCCACCCACTCCAAATTCAA
Seq A exon
GTATGTATTACGGCTTCTGAAACGTTTGGAATAGGATTTCCTGGTTAACTCGTTCTCCTGTTGTTTTAGTTAATGCTGGACATAAAGAATTAAATTCCAGTAGAGTAAGAGCAGTTTCTCTGGTCTGATTTCTTATTTTATTTATAGTTATTTGTAAGATGGAATTAAAGACTTTGACCAATTAGATTTGTTTTATACTCATTTCTTTAAGCATTCATTATGTATGGGTTCTTTTGTTTGTTTTTTGTAGGGCAGGGATTGAAGGAGAAATAGAATGAAAAGTAAGCACTGGCTTTTCAAAAAGATTTCATTGAAATTTTTATAAATATATCTAGAAACCATAGTGGAAAACTAGCTCATTCATATACTTCAAAGAAGAAAGCTATATAAAATATAGTCATTAGTTTGGATATTTAAAAATAAGCCTATTTAGTGGGATAGAGGCCAACTTGAGGTGCATAGTGAATTTTGTGATCAGCCTGGGAGATATATATATATCTTCCATATTGAGACCCTGTCCTAAAAATCAAACCAAAAAAAATTGTATATATAAACTGAATATCTAATTCTGAGCAGAATGCTAAGCTCATATTATGATTAAGTAAAATATTTTAAATGATTGTATAATACAATATGATTTTATTGAATTTAGATGATATATTTTCTAATTCATTTTTTCATTAG
Seq C2 exon
GCTAGTCTTGCTGAAATTCACAGTAACATGTGGGTAAGAAATGGTCTGCAAATCAAAGGACAAGCTATGACCTATGTCCAGTCTCATTTCTGTAACTCCATGATTGATCCAGATATTTACTTATTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008616:ENSRNOT00000011380:13
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTGAAATGTCAAGAACTAGAT
R:
ATATCTGGATCAATCATGGAGTTACA
Band lengths:
206-890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]