RnoINT0159645 @ rn6
Intron Retention
Gene
ENSRNOG00000008616 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:RGD Symbol;Acc:1565257]
Coordinates
chr3:56213450-56216036:+
Coord C1 exon
chr3:56213450-56213623
Coord A exon
chr3:56213624-56215575
Coord C2 exon
chr3:56215576-56216036
Length
1952 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GTTCTTAATTTTACTGGTAGAAT
3' ss Score
4.44
Exon sequences
Seq C1 exon
GTATCAATGGGTGGACCAGAACGTTGTCATGATAGTTGGTTCCCTGGCAGTAACTTGGTATCAAACATGCGGCACTTTATAAATTATGTCAGAGTGCGAGTCCCAGAGACTGCTCCTGAGTTGAAAAGGGATTCCCTCGCCAGCACGAGCTCTGATGGCTTGGGCTCTTTACAA
Seq A exon
GTAAGTTTAAAAGCGAGAGAGATGAAAGGGAAAGGTTTATGTTGTACTGAGATATGCTTAGATAACCTCCAGCATTCGGAAGAAAACACTGTTAGGGGGCTTTAGGTTGTCTTTTCTTTCTTGACATGTCTGAGCGCTGTGGCCTTAACCATTTTTTTTCCTTCAACCTGCTAGAATTCCCGACGGCCTAAAGTTCTTCAAAGAGAGGTAGATGTGTATGGTATTTGCATTAACTAGCAACATGGCTAATTGGAAATGAGGAAAAAAAAAAAACACTGAAGTATTTGTGTGTGTTTGTGTGTGATTAATATAATTAAATAAAAAAGATTTCTCGAAATTAGTTTTTTACCTTTAATAAGGTTATTTATATTTAATTTCAGGTAAATTTATGTTATTGATCAAAAAATGCAGAGTGGTTAGTAGTAAATTTTTCATTTTAGTGTTAAAAGTGTTCTGGACAGTTTCAGGTGGCCTACTTGTATCTACTTACATTAGAATTTCAATTGTCTTATTAACATCTTAAAAATGACTATTCCTAAATCAAAATAAATATTATTGCTGGCAGCATGCCTATTAAAAATATTTTTTTTTCTTTTGCTTCTGTGGCAATTAACTAATGAAACAGGCAATTAACTAATGAAACAGGCCTATAAGTACTTGTATTTCGTCTGTTGTGTTTTGGAACTCATTGTGAAGACCAGCTCTTTGCATGTTGCTTAATTAATCTTTAAAATAAAGTGAGAAGTGTAGCGGGAGAGAAGGCTCAGCAGTTAAGAGCACTGTCATCCCTTCCAGGGGAACTGGGTTCAATCCCAACACCCACATACTGGCTCACAGTCCCAAGCACCAGGCATGCACATGATGCACAGACATATATGTGGCTAAGACTCCCATATATATATAAAATAAATAAAATTTAAAAAAGAAAAAGTATTAAGATGACGTGTCAGATAAGTAGTTTTCTTTCCTATACACTACGTATCATGTGAATAGAGAGAGCTGAATTAGTATTTCTTCTAGTCAAGTCTATTGGTTAGAATATTTCTTGCATTTGACATATTTTTGTTGTGAACACTATAAAGGATTTTAATTAAAAACTTGGAACCTCTATCAGAGGCTCTTTTGATCCTAATGTTGTAGAGTACTTTAAAAACATTGAATGTTAAAATTTTATACTGTAATTAGACTTACAAAAGGATACTTTTTAGCGTTCTTTTTAGAAAGATGAGATCCATTAAACTGATTCATATTTTAATTAAAAGATGATGTCTAAGAGGACTGATGTGTTTGCTTTGGCAAAAGGACTGTTTAGAAGACAAATTATTGAGAAGAGCACTTGACTAAAAATGTCTATTCAAATAACATATGGTGATATGCAGTGTGAAGCAAATTAATTTAGTCTTTAGATTGTATCCTTATATTTCAGTTTTAAAACTTGAAATCTTTGTAATTTTCACTTTGAAGTTCCTTAAAAGTGAAATTAATATTTACTGTCTTAAAAAATGAAGGGAAATGGAATGTGTTTTCTGTGTGGAAGCTGTAGCACCCCTACAGAAGGTAACAGAGTCTATGCAGTTTCTTCATGAGTGGTGTGTGAGACAGCAGTTTTTCTTAAACTGAGAAGCTCAGTTTATGTATTTTAGTTTTCTTTAATTTTTGTTGTTTTGTAATATGGCTGCAGGTTTGGCCTACGCTTTGTTTGTTTTTAGTGGAACATTGGCTCAGGTTGAACAGAGGGTCAACTGCGGTGACCTTCTGTTCCTTACCGCTGTCCCCATAAAGTGGTCGTATATCTATTTGAGAAAGAAATGAAGGAAATGAGTTATCTGCTAGAGAAATCTTTGGATGAAAATGAAGCATTCCTTTTGGATAAATACAGTGATTGATACATTTTTAGAATTGGTTATTGGCTAACTTCTTCATCTTTCTGTTGTTCTTAATTTTACTGGTAG
Seq C2 exon
AATTCTGGTACAGCTCAAGTTTTCAGCTTAGTAGCAGAGCGTAGAAAGAAATTTCAGGAGATCATCAATCGAAACAACAGTGAAGCAAATCAGGTGGTTCGGCCCAAGACTCCAAGTAAATGGTCAGCTCCTGGCTCAGCTCCCCAGTTAACCACAGCCATTTTGGAAATTAAGGAAAGCATATTGTCTTTGCTAATAAAACTTCACCACAAACTCTCAGGAAAACAAAACTCTTACTATCCTCCATGGCTTGATGACATAGAAGTTTTAATACAACCAGAAATTCCAAAATACAGTCATGGAGACGGTATAACTGCTGTAGAAAGGATTTTGCTAAAAGCTGCAGTGCAAAGCAGAATGAACAAGCGCATCATTGAAGAGATATGCAGAAAAGTGACTCCTCCCGTGCCACCCAAAAAGATCACCACAGCAGAGAAGAAGACTCTGGACAAGGAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008616:ENSRNOT00000011380:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.252 A=NA C2=0.240
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGTCAGAGTGCGAGTCCCA
R:
TGTCATCAAGCCATGGAGGAT
Band lengths:
349-2301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]