DreINT0170993 @ danRer10
Intron Retention
Gene
ENSDARG00000042508 | ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:ZFIN;Acc:ZDB-GENE-030131-1473]
Coordinates
chr9:3983492-3986037:-
Coord C1 exon
chr9:3985843-3986037
Coord A exon
chr9:3983938-3985842
Coord C2 exon
chr9:3983492-3983937
Length
1905 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCTGGTCTGCTTCTGTTCAGAAT
3' ss Score
7.52
Exon sequences
Seq C1 exon
GAGCCCTGTATCGAGGAGCACTGCCACGACAGCTGGTTCCCGGGCACCAGCCTGCTGTCTAACCTCCATCACGTCATCAACTTTGTGCGGGTTCGAGTGCCGGAGACGGCTCCGGAGGTGGAGAGGAAGCGAGAGAGGGAACGAGAGAGAGAAACTCCACCCAGCACCAGTTCAGAGAGCGCCACCTTTGGTCAG
Seq A exon
GTAAGGCAGACACTGTCAGGTGTGCAGGGACGTCTGGTTTCAAAGCGTCAATATGGGCGATTTGCAAAAATGACCCCTATATGCAGTTTTACTTTTTAACAACGTCACTCTCATTCCACAGAGCTCCAGAAGGCTTACAGGAAATTGGAGAGAGGTAGACGAGTTTGGGAATGCTTTAAAGTGGTGTGAAATGTCTTCAAGAGTTCTGTTTTGAATAACCAACAGTGGAATAGTCTCAAAAAAGAAAGCTTGTGCTTGATTTGTTTCGCAGACGTGTTAAAAGACCTGTTGCTTTTTTGTCAATGTTAATAACGTTTTAGGGTGCTTTCACACTGATCGATTCAGTTGTTCCGAAACAGAAATTACATTTCATTGTTGCTCTTTGCTCTTGGAGCGGTTCGCTTTCACACGGCAAAGTTTCTAAACGGACCAAAAGAGCTAAAACAAGTCACATGCGAGTAAACTCTCCTCACATTGGTCAGAGTTTCACGGTTTAGTCCCGCTCAGCTGTCAGGGGAGAGGGTGGTTTGGTGTTGTTAGACAAGGTGCACACGACGTGTCTGAAGAGGGAGGAGAGATGCGGTGGGGAGAGGTGAAAAGGGTGAGCGATGTATTTGAGAACCGGGAGGGAGACGCGAGATTACCAGGAGATTATCACTCATTTGTGGGCATCCGGGACACTTTCGAAACTTCCCGCCCTACTCATAATTCTCTCTTTATATAGCCGTGTGCATATTACATATCCATAAAACACTGATATAACCGCGCTCGGATCATATCGCTTTCTCACTGCAATCGATCCGCTCCAGAGTTTGTTTCAATCAAGCCGAGACCACCTCATTCAAGCGATCTCGGAGCGATTGCTTTGGCACGGAACAAATCGCGATTGCTGGATTCACATATGCCAAACGAACCGCTCTAACTGGGCAAACGAGACCGATTCCGAAACAAAAATGTAGGCGTGAAAGCACCCTTAGTGTGTCTTTGACAAAATACGCATGATGAAAACTGTTAGGAAACATTTTTGATTTTAGAAACTGTGTGTCTTGTGTTCTTGCATTTATTTTTGAAAAAAATATTTATATGTAGAGCCCTCATTTAATATTGGCACCCTTGCTTAATGAGAGCAAAGGAGGCTGTAGTAATGTACATGGGGTTGTGAAAGACGGACAAGTTTGGTTTTGGATAAGAGTTGAGGCTTTTTTATATATACATGTTTTGAAATCTTTTCTAGTGATGAATGAAATTATAAAGTAGTCACATGAATGGATTTAATATCTAAACAATAAAGACAATTATATTCATTCATTCATCTATTTTCTTGTCGGCTTAGTCCCTTTATTAATCCAGGGTCGCCACAGTGGAATGAACCGCCAACTTATCCGGCACATTTTTACACAGCGGATGCCCTTCCAGCCGCAACCCATCTTTGGGAAACATCCACACACATATTCACACGCACACACACACTCATACACTACGGACAATTTAGCCAACCCCTATTCACCTGTACCACATGTCTTTGGACTGTGGGGGAAAACAACCGGAGGAAACCCACAAGGAGAACATGCAAACTCCACACAAACGCCAACTGAGCTGAGGATCGAACCAGCGACCTTCTTGCTTAATTAATTAAAAATAGATTAAATTAGTTTATTTCCTCAAAATTCTACACACAATACCCCATAATGACAATGTGCAAAATTTTTTTTGAAATTGTTGCAAATTTATTAAAAATAAAAAAACCTGAAAAATTACATGGACATCAGTATTCACAGCCTTTGCTTTCTGCAAAAAAATAATAAATAAATAAATTTAAAAAACGCTTCGGTAAACACGCAGTCTACGTAATTAGAGGAGTTTTTTTTTATTCCTCCTGCTCATTCCTGGTCTGCTTCTGTTCAG
Seq C2 exon
AATCTGCGTGAAGCTCAGGTGTTCAGTCTGGTGGCGGAGCGCAGGAGAAAGTTCCAGGAGATCATCAACCGCAGCAACCATGAGGCCAGTCAGGCAGTGCGCCCCAAGTCCTCAGCGTCCCGCTGGCTTCCACCGGGAACGCCTCCACAGCTGGTGACCGAGATCCTGGAGATACGCGAGAGCATGCTGTCGCTGCTGGTTAAACTGCACCAGAAACTGTCGGCCAAGCAGAACTCTCTGTCTCTGAGCTGGTTGGCCGAGGTGGATCCTGCCCATCATGCGCACGGAGACGGTTTAACGGCCATCGAAAGAATCTTAGCCAAAGCTTCAGCTCGAAGCAGACACAGTAAAAGATGCCTACAGGAGATCTGCGGGAAAGTGTGTCCACCCATACCGCCAAAGAAGATCAGTCCTGGAGATAAGAAGAGCATGGACAAGGAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042508:ENSDART00000129091:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.454 A=NA C2=0.322
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:
ATCAACTTTGTGCGGGTTCGA
R:
CCGACAGTTTCTGGTGCAGTT
Band lengths:
343-2248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]