GgaINT0047425 @ galGal4
Intron Retention
Gene
ENSGALG00000009608 | UBR3
Description
ubiquitin protein ligase E3 component n-recognin 3 (putative) [Source:HGNC Symbol;Acc:HGNC:30467]
Coordinates
chr7:18011734-18012833:-
Coord C1 exon
chr7:18012633-18012833
Coord A exon
chr7:18011871-18012632
Coord C2 exon
chr7:18011734-18011870
Length
762 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGC
5' ss Score
5.34
3' ss Seq
TTTTGTGTCCTTGTTCATAGTCT
3' ss Score
8.44
Exon sequences
Seq C1 exon
AATGACCAAGTTCTCCAAGGTTTTTCAGTCGACAAAGGGGAATTTACTTGTCCTCTATGTAGGCAGTTTGCTAACAGCGTTCTTCCTTGTTATCCTGGAAACAACGTGGAAAGAAGCCTTTGGCAAAGTCACAGTAACAAGTGCATGCGAGATCTTGTACAGGAAGTGGAAGATCTTCAAGAACAGCTGGGAACTTTCCCA
Seq A exon
GTAAGCATCAGTGTAAGGCAGAAAGATCCTTGTTAATTTGCCTCTACATATCAGTTTTTACCTTATATTTGTGACCTCTTAGAAATGTGACAACGTGGGAAGCTTCATTTTCTTTTTATACGGAAGATGACATTATTTCATTGCTTAATCAAAATGTTTCAAACGCTTGCAGCATTTATTGGATTGCCTGCTAGAATAAGACATACAAAAAGCAAAAATGTGATTTGTAGTTTTTTTGTGGATTACGTTTTCACTTATCTCCATTGTAATTTACATGGAACTGAGTCATAGTATTAAATATAATATTAAATTCATTTATCATTTCTTTACAATATAAAAATATCAATATCCTTCTGACTGGAAGCTGTTAAAAGAATGCTTGTTAAGAACAATTTAAGATATGGAACATTTGTTGTAGTTGGAGTGTAGTTTACCAGATGTTCACATTTTGCAAAGCTTCATGAAGACAAAAAAAAAAAAAAGGCCTCCAGTCTTGATGGCGACGTTATGTTCATGTCCTTGTGCAATGCACATACTGTCTGAAATAATGCAAGGTGAAGAATCTCACTGCTTCCACTGTTCTCAGAGAGTCAGAAGAAACTAACATTCTGTGAGGCAGAATATTGTCTTTTAATGCCTATTTTTTCATACCTGTGAATGTATTTGTATAAACGTGAAAGTACCAAACTTCGCTAATTCAGCTAATGAGCTGTTGCACTTCTTTGGGTAAAACTAAGTGAACTTTTGTGTCCTTGTTCATAG
Seq C2 exon
TCTGAAACAAACCTCAGTAAAGAAATGGAATCTGTGATGAAAGACATAAAAAGTACCACACAGAAGAAGTATACAGATTACAGCAAGAGTCCTGGATCCCCTGACAATGACTTCCTGTTTATGTATTCAGTAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009608:ENSGALT00000015660:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.255
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PD(33.3=28.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACCAAGTTCTCCAAGGTTT
R:
TGGCTACTGAATACATAAACAGGA
Band lengths:
335-1097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]