BtaINT0156618 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020296 | UBR3
Description
ubiquitin protein ligase E3 component n-recognin 3 (putative) [Source:HGNC Symbol;Acc:HGNC:30467]
Coordinates
chr2:26410090-26412230:-
Coord C1 exon
chr2:26412030-26412230
Coord A exon
chr2:26410227-26412029
Coord C2 exon
chr2:26410090-26410226
Length
1803 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGC
5' ss Score
5.34
3' ss Seq
TGTTTGTGTTTTTTTTACAGTCA
3' ss Score
9.59
Exon sequences
Seq C1 exon
AATGACCAGGTTCTTCAGGGCTTCTCAGTGGACAAAGGAGAATTCACATGTCCTCTCTGTAGGCAGTTTGCTAACAGTGTTCTTCCTTGTTATCCTGGAAGCAATGTTGAAAACCACCTTTGGCAGCGTCCTAGTAACAAAAGCATACAAGATCTCATAAAGGAAGTGGAGGAGCTGCAAGGACGTCCGGGAGCTTTCCCA
Seq A exon
GTAAGCATCAGTGTAAGGCAGAAATATCCTGCTTAACTTAGCTCTGCTTTTCAGCTGTAATTTTTGTTCCATTTCTGTTACTCTGGACCTTCATACATTTAGTAGAAATTGCTTTTAGAGTGTTTCTTTTCCATTGGTGGTTATTAAAAACAAAAATCAGAGTAATAGAACAAATTATTGCTAAAGGCTATACTTTTCCTTAATATCAGTTGTTATAATTTTAGTATATGTCTTCCAGATCATGAAATTCTATAAGCTTAGATATGGTTATGTTGAAATATTTAAAAATGAAATTAAACCTTATCTATATCTTGCAATGTAAAGCACAGTCTAATCTTTTAAAAATATGTCCATTAGGTATATTAGAATTAAGGTGATATATTTATACACACACACACACTTTGTGTGTAAGTATAGATTTGCACACATATTTCTGTGCATTAGAGAGGTCAAATATTGTGTATATGATTGAAGCATCTACCATAAGTCAGTCTGTTTTACTGTGAAATTTGATATGAGTGAGCCCATCTTTTATCTCTTTCAGTAGGATTTATTTTTTTGATTTAAATTCTTGACTATTTCATTTTTATCACAGATTTATGTTGTGATACCTGAGAGAAGTGAGAGGTATGCACAGTAAATGCAGTAAATTTGTGAAACCTATGCATATCTGACTTTTTAAACAAATTCATATTTCAAAGCTACTCCCTTTTCTCAATTGAAGACTAAGATTTGCGTCTCTGTGGTTTTTTCTTTTGCAAATCCAAATTTTTATGTGTTTAAAATATGCTTAAAGTAAGGCACATTAGTATTAGTCCTGAAAAAAATGTGCTTAAATGAAAGATTTTTTATAAGCATGGAAACTTCTATGGTTCAGTTCAGTCACTCAGTCATGTCCGACTCTTTGCAACCCCATGGACTGCATGCAGCACACCAGGCCTCCTGTCCTTCACCAACTCCCAGAGTTTACTCAAACTTATGTCCATTGAGTTGGTGATGCTATCCAATCATCTCATCTTCTGTTGTCCCCTTCTCCTCCCACCTTCAGTCTTTCCCAGCATCAGCGTCTTTTCAAGTGAGTCAGTTCTTCACATCAGGTGGCCAAAGGATTGGAATTTCAGCATCAGTCCTTCCAATGAATATTCAGGACTGATTTCCTTTAGGATGTGTTGGTTGAATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGCGCTCAGCTTTCTTTATAGTCAACTCTCATATCCATACATGACTACTGGAAAAACCATAGCCTTGACTAGATGGACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTTATTAAGCTAGCTAATTGGTCATAACTTTTCTCTCAAAGAGTAAGCATCTTTTAATTTCATGGGTGTGGTCACCATCTGCAGTGATTTTGGAGCCCCCCAAAATAAAGTCAGTCCCTGTTTCCCCATCTGTTTGCCATGAAGTGATGGGACCAGATGCCATGATCTTAGTTTTCTGAATGTTGAGCTTTAAGCCAACTTTTTCACTCTCCTCTTTCACTTTCATCAAGAGGCTCTTTAAAATGTCTCTAAGATAAGAGAAAATATTTCTTGATCTGTTTTATTTTGGTATACTAAATATATTTTTAGCTGATAGCCTATATTTATCTGTTTTGATTTTTAAACCTTAATTTCATAGTGTGCTTAAACAATAAACACTGTAGTGTTAGACTATTATTAGAGAAAATGAATATACATAAACTTTTTATATATGTTTGTGTTTTTTTTACAG
Seq C2 exon
TCAGAAACCAACTTAAGTAAAGAAATGGAATCTGTAATGAAAGATATAAAAAATACCACTCAGAAGAAATACAGAGATTATAGCAAGACTCCAGGCTCACCAGATAATGATTTTCTCTTTATGTATTCTGTTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020296:ENSBTAT00000061386:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.090 A=NA C2=0.391
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PD(33.9=28.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACCAGGTTCTTCAGGGCT
R:
AGAGAAAATCATTATCTGGTGAGCCT
Band lengths:
318-2121
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]