BtaINT0156611 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020296 | UBR3
Description
ubiquitin protein ligase E3 component n-recognin 3 (putative) [Source:HGNC Symbol;Acc:HGNC:30467]
Coordinates
chr2:26457738-26459386:-
Coord C1 exon
chr2:26459282-26459386
Coord A exon
chr2:26457912-26459281
Coord C2 exon
chr2:26457738-26457911
Length
1370 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TCATTATGTTTATGTTTCAGGCA
3' ss Score
9.79
Exon sequences
Seq C1 exon
ATTTTGATGGATCATCAAAATCTTTCAGAACATGTACTCTGTATGGTTTTATATCTGATTGAATTAGGACTTGAAAATTCAGCTGAAGAGGAATCAGATGAAGAG
Seq A exon
GTAAATAGTTTATTATATTTTTAAATGTTAAAGTTGTGATATGCCTTAATAAAAGGTTGCATGTCATCTTGAAGGTATTTATTTTGTCTGAGTATCATATTTAGAAAAAAATCTTCTTAGGAACTTAGAAAGGCCCTTTTAAATCTTCAACTACATATGTTCTTTTAGAGATTTCACTAATATATAAAACTCTCATTTAGAGAATTATTGAATTTGAAGTTTGTAATTCATAATATGTAGATCTAAGAAAAGTTGTTAGTGCATTTTTTGCTGTGCTCAGATGCTCAATTATGTCCAACTCTTTATGACCCTATGGGCTGTAGTGTGCCAGGCTCCTCTGTGCTTGGGATTCTCCCAGCAAGAATACTGGCATGGGGTGCCATTTCCTCCTCTAGGTGATCTTCCCAACCCAGAGATTGAACCTGCATATCCTGTGTTGGCAGGCAGGTTCTTTACCACTAGTGCCATTTTTGTAGTTACTGGTCAGGAAGATCCCCTGAAGAAGGAAATGGAAACCCATTCCAGTATGCTTTCCTGGAAAATCACATGAACAGAGGAGTCTGGCGGACTACAGTCCATGAGGTCAGAAAGAGTGGGACATGACTGAGCAATTGAACTACACACACAGACACTGGTAAATAATTACGTTAGGACTTCAGTCTAGACATTCTAATAATTTCATTAGGGATTTTATTTTTGAATAGCAAATTCTTTCTGTAAAGATTTTAAGTTAATGGAGTAAGATTTGTTGTAAAGAAGAATGTTTACTTGAGAATATAAGTTGTTAATGTGTTTCAGGACTGTATAAGTATCATTTCCTTGAAAGTAATTGTTAGTTACTACAAACTGATTTTACAGTTAATTGATATTTTTCTCATTCTCTCCATACAAAAAGACAACAGCAATAGACAGACAAGTGAAAAGGCTAGGCAGTACTTGGTAGTGTTAAGCTGAGTCAACCTATATTCTTTCATAGATATTAAAAAGATCATTAATATTCCTCTAAGAATAAGTCAGACTTTTGATAGATTTTTCAGACTTCCTTCCACAGTTAGTCCAAATTAGTGTTATTTGACTGTATTATGAGTTATTTTTAATGGGTGATGAAAAGTATCCTGTACTGCATATTTCCAAATTGAAAAATGTATTTTCTTCTGGAGAAGTTTAGCTGACTTCCGTATTAGCATCAAGCAGTTTGTTTTTAAATTTTGTGTTTGCATTTGGTTTTATTCGCACTTCGTAGTTGGTAAATGTGACTTTAAGGGATTAAAGGATATAACAGGCAGTGAACCATTATTTGGGCTTGTTACATCTCCATTGTATCTTGGACCTCACTGACAAGATTTGTATTCATTATGTTTATGTTTCAG
Seq C2 exon
GCATCAGCATGTGGACCTGAACGTTGTCATGACAGTTGGTTTCCTGGTAGTAACTTAGTATCGAATATGCGACACTTTATAAATTATGTTAGAGTGAGAGTTCCAGAGACTGCTCCAGAAGTGAAGAGAGACTCACTTGCAAGTACCAGCTCTGATAGCTTGGGATCTTTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020296:ENSBTAT00000061386:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.207
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:
TGGATCATCAAAATCTTTCAGAACA
R:
TGTAAAGATCCCAAGCTATCAGAG
Band lengths:
271-1641
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]