RnoINT0159665 @ rn6
Intron Retention
Gene
ENSRNOG00000008616 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:RGD Symbol;Acc:1565257]
Coordinates
chr3:56172538-56173827:+
Coord C1 exon
chr3:56172538-56172604
Coord A exon
chr3:56172605-56173696
Coord C2 exon
chr3:56173697-56173827
Length
1092 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
ATTTTCTCTTTCTTATACAGATC
3' ss Score
11.53
Exon sequences
Seq C1 exon
GAGGACCAAGACGGGAGTCAAGGCTTGGGCAAGAGGAAGCGGGTAAAGCTAAGCAGTGGCACCAAAG
Seq A exon
GTATCTATAGTTTGCCTTTTTTTTTTTTTTGGAGATAGGTTTCACCACATTATCTAGACTGGCCTTGCAACTCACTGTGTACCTACACTGACTGTGAACCCACACAATCTTGGCTCAGTCTCCTAAGTTTTACTGGGATGACAGCTGTGTGCCACTGCCACCACACCTGATTATGTTTTCCTCATTTAAAAAATGCTTAAAAACAAACAAAACCCTTAACATTTCAAAATCCTGGTTACATAGTGAGACCCAAGACCCTGTCTTAAAAAAAAAAAAATCTCAGAAGCAAATAAATAAATAAATACATTTAAGATTTAAATTGCTTGAGTTTTATGTTTTCAGTAGTGTTTAGTTTTAGCTTCGGATTTTTTACATTTATATACCATGATATTCTTTTAAGGAAATGACAGTTCTAGAATGTCTTGTCTGAAACATTTGGGACTAGTTTCTGATTTTAGTGTTTAAAATTTTTTATTAGTTTACCTGTATAGATGTTTGGGCTATAGTTATGTCTGTATATAACTATACAGGGTCGTGTGTGCCCAGTGCCTGCCAAGGAGACTAGAAGAGGGCAGAGGGCCCCCTGGAATTGGAGTTTATGGATGGTTGTGAGTCACCATTGTGGGTTTGGGGAATTAAACCTGGGTTTCTGGAAGCACAGTTATTGTTCTTAACTGCTGAGCTCTCTACAGCCCCAATTTTTGAGCTGACTTTTGGTCATTTGAAACGGTTGTACTGTACAGTGTTGGTTGTCCTCAAGGTCTGTGTGCTCAAAGCACTTCAGATTTTGTAGCATTTTCCATTTTGGATTAGTGATGTCAAATCTAAAATTTGAAACTTAGAAATTTTAGGTACATGGCTATGTTCAAGAACAGGTAATACTTTTTGAGTAGCTGCTTATTATTTTTAGGGTTAAATGTTTCGTTATTTGTGTACTGTGGACGTTGGTGACGCTATTTTAGTACAATAGTGAAAGAAGATCATTGAAGTGTAGGTATTTTCAGATGAGTTTGATGGGCTCTTGGATTGTATGGGAAGGTTTACATGAGATGAGCAACTTAATTAGTGATACATTTTCTCTTTCTTATACAG
Seq C2 exon
ATCAATCCATAATGGATGTTTTGAAACATAAAAGTTTTTTAGAAGAACTATTGTTTTGGACAATAAAGTATGAATTCCCCCAGAAGATGGTAACTTTCTTACTCAATATGCTTCCAGATCAAGAGTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008616:ENSRNOT00000011380:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.647 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065015=CRAL_TRIO=PU(3.4=9.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGGAGTCAAGGCTTGGG
R:
ACTCTTGATCTGGAAGCATATTGAGT
Band lengths:
183-1275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]