GgaINT0026875 @ galGal3
Intron Retention
Gene
ENSGALG00000002989 | UBE2Q2
Description
NA
Coordinates
chr10:4441563-4443352:-
Coord C1 exon
chr10:4443286-4443352
Coord A exon
chr10:4441953-4443285
Coord C2 exon
chr10:4441563-4441952
Length
1333 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
CGTTTCTCTGTTCTCCATAGGCT
3' ss Score
11.87
Exon sequences
Seq C1 exon
AATCAATATAACCTAGCAAGAGCACAGCAGTCCTATAAGTCACTAGTACAAATACATGAGAAAAATG
Seq A exon
GTATGTATGCCTTGCATTTTTGTTCTTGTATGCAGAGCATCCTAGGATTTTGATATTTGGCAGCAATGAAACTTGAAGTGCTGGAATGCCATAGGTTGGGTTGGGAAGGCTGGAGATGGTGTTTCTGCTTCTCATCTTTAAGCGCTGTAGTCTTTCTAATTAGAATAACTTGACTGACCATCTTTGCAACTTCTCCAGCTTACATGGAAGTAATGATGTCCTGATGTTCTTATTGCTTTTCAAAAAGTAGTTGAGCTTCCTTTTCAACTAGTAGACCTAGTAGCTTTGTTGTTGCTGTAGCTGTTGGAATGTCTATGTGTTATTGAAGTGCTGGATGGAAGGTTGTCTGCCTCTTTGGTTCTGTGTGGCATGGGCTGAGAAATAGTAGCCATTAAAGAAGATGGTTGCTGGTCTGTCTTTCCATTTCTTCAAAAGATAGAAAAAGCCCAACTGAGGTGCACTGCCTGGGGAATGGGAGATGGATTTTTTTCTTCTATTTAAAGCTAGTTAATGTTCTCGTGGCTGCTTAAAGCAAATATTAACATGCTTGAGGTATAGTTGCATTTGTTGTGGCAGGATGAGAAGGCCAGAAATGACCTGAGGCTTTAGATAGTTTGAGTGAGTTATATGCCGTACAAAAGCAATCAACAGAGTTGGTGTCCTGCTCTCCTGATGAGGGAATTAGTCCCAGTTCTGACTTCAGAGATGCACAGCGTCCTTTGGGAACTCCTGTTGCTGTGAACGTGACGCGAGCATATTCTGGTGTGATGAGCACCTCGGTTTTCCCACTTCTAAAACAAACCTAATGCCTTCTGGACTGTTAGGAAGAAGGTCACAGAGGAAGATTTTAAAATGCTTTCCAATTTCTTGACATGTTGGTCTTGCCATTAACTGAGTCTCTTGCTTTTTTAGTTTGCAACAAAAGCCACCATGGCCATTGACTTCTAGCCACATGCTGGCCATGACTACAGTGTTTGCTGCTGCAACAGGAGCTGTACACAAAACATTCACAGCATTTATTGCTGCTGCAAAAGGCATCTTTGTTAACTTACTGCTGCTACCAGTTCTCTGGGACGACATATGTAGGGCCTCTACTCACTGTACTAAAACTGAGAGGAATTTTTACCATAGTGGCTGGGAGACTTGAGATTGGAGATCTGGAGGTGGTCAGAAAAGGCCACGTACACTTGATCCGATATGATTCAACATGCCAAATGCTATCAGGAGCCAGAGTTACTCACCTGACATTTCTGCCACCCATTCAGAAGGCAGCTGGTAAGCTCCTCTGAGCGGAGCCAGGGCAGTGCCTAATGCGTTTCTCTGTTCTCCATAG
Seq C2 exon
GCTGGTACACTCCTCCAAAAGAAGACGGTTAATACTGAGGACTGTTGTATACCTGGACCAATGCCAACAAAAAGAGCTCTTTTTAATGTTTTCCAACACAGAGACTCGAGCTATGAGTGCCCCTATAACAGCCGTACTGAAGACTTTAGCTATTAGATAAGTTAGTGGATAATCTGTCAACTGACACGTCAAGTATAAGTTGCAGCCTTACCATTCCGCTCTTCTTAGGCATCTTGAACTGAGCAGTCTGGGCCTTTGCTGTATTTGTTCTTCATGGATTAAGCATATTTGGGCCACTCCTTCCCTTCTCCCTTTTTTAAGTTGGAAGTGTAATGCTGCACTGGGCTGCTGCGTTCCCCGGGGGCGTTCAGCAGGAGTTGGTCACGCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002989:ENSGALT00000004731:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.600
Domain overlap (PFAM):
C1:
PF0017921=UQ_con=PD(12.2=82.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGAGCACAGCAGTCCTAT
R:
AGGGAAGGAGTGGCCCAAATA
Band lengths:
358-1691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]