RnoINT0159639 @ rn6
Intron Retention
Gene
ENSRNOG00000008616 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:RGD Symbol;Acc:1565257]
Coordinates
chr3:56194503-56196437:+
Coord C1 exon
chr3:56194503-56194590
Coord A exon
chr3:56194591-56196297
Coord C2 exon
chr3:56196298-56196437
Length
1707 bp
Sequences
Splice sites
5' ss Seq
CATATCCTT
5' ss Score
-20.06
3' ss Seq
TCTTGACACATACATCATATCCC
3' ss Score
-5.77
Exon sequences
Seq C1 exon
GGATGTCTGATGATGAGATTCTCAGGGCAGAGATGGTAGCCCAGCTGTGTATGAATGACAGGACGCATAGCTCTTTGCTTGACCTCAT
Seq A exon
ATCCTTTGAAAATGTAATTTTGTGCTTATGGTAACCAATACATTTGTAGACTAAAAATATCTCAATTTAAAAGATTTTTTTTAAACTTGAAAATATGTAGAAAAAATATCAGTTATTTGGTGAAGGCTGTGTTCAGGGCAGGTGGTATGTGGTGTTGTCTCTCGCTGTCTCTCAGGAAGATTTTCTTAGACTTCAGGGTTGACCTCGGGCTTGACAGTTCTGGACACATAGGACCTGATCCTCACATAACAACACTGGGGAGAGCAGTCTGGGCATTTTGGAAACAGGACCCCTGTCTTTGTTCCTTATGTAGCTAGGCTGGAGTACCTAGAGCTTAGGGAGAGGCTTTCTAATTCCCACTATCAGGGCTTTAAATATTCCCATGATTTTTGTTAGAATCAGTCTTAGAGGATTTTCAACTTTGTGGATTATCCTCTACCGACTGGAAGCATGGTGCCTGGGATAGAACTGAATGTTCAGTAGTAGTTTTGTTTTTTTTCTTAAATTAAAAGTATTTTATATGTATGGGTGTTTGCAAGCATGTATGTATGTGCACCACATACATGCTTGGTCCTGGCAGAGGTCAGAGGAAGGTGTCACAGTGCCTGAAACTGGAGTCACAGATGGTTGTGAATCACTATGTGGGTGTTGGGAACCAAACTTAGGTCATCTGCAAGAGCTGCTGCTGCTTTTACCCACTGGACTATTATCCCTCTTAAATGCATTACATTTATTTATTTATTTTTTTTATGCGGACATTTTTGAGGTAGGATCTCACTGTATAGCCCTGCTTGGCCTGAAACTTAACAGTGTGGACCAGGGCCCGGCCTTGAATTTGGCTAAATTCTCCTCCTTCTGCCTGCCAAATACTGCTGTTAGAGGCCAATACCATCATAGCGGCAAGGTAATGAAACCTTAAAAACGGTAGTTTTTTGTTTTTGTTTTTGTTTTTTTTTATGGTGAAAATATCTGACTAAAGTTAGTGTGACTGTACCGTTTAGAACATTTGTTTTCTTGACCACTTTGAAGATTTTGTAGCATCAGTTCAGTAGCCTGGTAGCAAGCCCAGCCCCACTGCAGTGAGCTGGGTTAAACCTATGGTCTGGGATGTACCAGGCAAGTGCCTGAACTCGCCTCAGCGTCCTTTGATGATTTCTTCAAACAGTTATAGACTATCAGTGCTATTACAGAGCAAAAACATTCTCTCAAATTTGATTTTAGTTTAAGAATTATATGCCTTAATATGAAATAGGACAGAGTCTTTGTGGCATGATGCTTTCCCTTTGCCTGAACCCACATGTTTATATTTGGTGGAAATTTTGCATTTAGAAAAGTCATTTTTACTTCTACAAATCTGTGCTAGGTTTTAGTGTATTCTTTTTAGTTTTCTGAAGAAGGATAAAGTATATTCAGTGATGAAAATGGAGATAATTGAAATTATTTTCCTTTCATTTAATGGAATTTGATCAATTTATTTGAGGGGAAGTATACTTAGGGTCACTTCATCATATAGTTTATTTGCCTTCTAGATTTAAAACCACAGTGAAGTTAATACTGAACTATTATATTGCCATCTTGTGGCCAACATTATACATTGCAGCCAGTCATTTTCTATTTTGATAAAATGAATTTGAACTGAGTAATTTGCGGATGTTGAAGCTGGTGCTAGTCATTAATATTGTTTTTTTCTTGACACATACATCATAT
Seq C2 exon
CCCAGAAAATCCCAACCCTAAAAGTGGCATTATTCCTGGAAGCTATAGCTTTGAATCAGTTTTATCTGCTGTAGCTGACTTTAAGGCTCCCGTTTTTGAACCTGGAGGCTCCATGCAACAAGGCATGTATACTCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008616:ENSRNOT00000011380:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.003
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:
TGTCTGATGATGAGATTCTCAGGG
R:
TGGGAGTATACATGCCTTGTTGC
Band lengths:
222-1929
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]