DreINT0170671 @ danRer10
Intron Retention
Gene
ENSDARG00000100766 | ube2q1
Description
ubiquitin-conjugating enzyme E2Q family member 1 [Source:ZFIN;Acc:ZDB-GENE-050522-329]
Coordinates
chr18:50615358-50617666:-
Coord C1 exon
chr18:50617261-50617666
Coord A exon
chr18:50615463-50617260
Coord C2 exon
chr18:50615358-50615462
Length
1798 bp
Sequences
Splice sites
5' ss Seq
ACGGTACAC
5' ss Score
5.08
3' ss Seq
CTGTAATCTTGCTCTTTCAGGAG
3' ss Score
9.93
Exon sequences
Seq C1 exon
CCGCACCGAACACACAGAACCCGGTTTCACCGAAACATCATGAAGGATTAACGGCAGATCAGCACTTTAAAACCGGCAGAGCAGAGATCAGGAGCCCCGAGCAGCGTCCAGCCCGCTGACGGCTTCATTCCCGCGCTGACACTCACGTAAACACGGCCGCAGCTGTTGTCCGCATCGCTTTTGTCCGCCGTTTGTCCGGTTCCTGCCCGGTTTCTGCCTCCCGGAGCCCGGAGATGACCGGAGGAAGATGTCGGTGTCGGGACTGAAGGCCGAGCTCAAGTTTCTGGAGTCCATTTTTGACCCACATCACGAGCGCTTCAGGATCATCGACTGGAAACCGGACGAGCTGAGCTGCCAGTTTAACGTTACCGGAGAACAGCTGCTCATCATACACTGCAATATCACG
Seq A exon
GTACACACACACGCAGTATACAGTAAACACTCTGAAAACACACACCGTACACTAAAAACAAACTCTACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACAGAGAGAGCGCACTACGTACACACAAACCGTGCACTGTAAACAAAAACACGCACTGAAAATATACACCGTACACTTAAAAACAAACTACACACACACACAGTTAACGGACTACGTACACACACACACACACACACACACACACACACACACACACACAGTACGTAGTAAACGCACACCGTACACTGTAAGCAAAAACACGCACTGAAAATACACACACACACACACACACCATACGCTGAAAACACAGCACATACACAATAAATACACACTGTACAGTAAACACACACTAAACACACACACATGCACTCTCTGAACACACCATACACTGTAAACAAACAAACACACACACACCATACACAACTAACACACTCGGAACACACACACACACACACCATACACTGTAAAAACACACACATCGTACACACTGGAAACACTCAGAACAAACATCATGAACACACACTAAGGATCGAACACAACACACCTCTGATCACACATTTAAACACACACGCACTGTACAGTAAACACTGGGAACACACTGTACACACACACACACACACACACACACACTCACTGAAATACACTGTACAAACATGGACCACACACACACACACTGTAAACAACAAACTCACTGATCATATACACACTGAACAAGCAAGACTAAACACACACTCATACACAGTTAACACACTGCACACACACTCTCTTGCAACTTACACACCCCGTACACACTGAAAACACTGATTACACACATACTGTAAGCAACACACACACTGATCACACAATAAACAAGCAGCACACTAAACAAACACACTCACTTTTTACACACACACACACACACACACACACACACAACACAGTAAAGACACAGTGTTTACACTGAAAACACACTGTAAACATGTACACAGCATACAAACTGAACGCACATACTGTAAGCAACATACTCTGATCACACAACATACCACACACACACACACACACACACTGATCACACGTACACTATACAAGCAATAAACCAAACAAACACTCACTCCATACACACACACCCATACACACACCCATACACACACCTAACACCGTAAACACACACAGTAAACATGTGACCTTGCACACTGAAAACCCACTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTATGTAAGTTCCTGCAGGTGTTGTTTTAGAGCTGTTAAATGGAGGAATGTTGATAAGAACACACTGTCAGTCAAATATTCACACGCACACACACACACACACTCACACACACACACACACCCCTCTTCTTTGATCACTGCAGTTGTCCACATTTGCAGTCAGCAGATCTCTATAGTGGATCATACACAGCATGAAGATCAGCTCCTCTCCGTCACTCTAGATGGGTAAATCGAGAGTTTGTCTTCAAGAATAGATCAGTAAGGGTTGCTACCACGTCTGGAGATGCTTGAAAATGCTTGAAGTTGAATCTGGTGGCCTAGATTATTTTGTGAGTGCTTGAAGTTGTCATTGTTCCGGAGTGTTGGCCATCTATATTACTGAGTCCAGAATAATAATGAAGTGTTTAAATCAGCTACACTAAAGTCTTTCAGGGCAGACGCTGTCCTCAGCTCTCCAGTGCTGCTGTGCATTGTGGGTAATGCTGTAATCTTGCTCTTTCAG
Seq C2 exon
GAGTCGTACCCGTCCACGCCGCCCATATGGTTTGTGGATTCGGATGATCCGAGTCTGACTGGAGTGCTGGAGCGTCTGGAGGAGGTCAGGAGGGGAAGCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100766:ENSDART00000159481:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.109
Domain overlap (PFAM):
C1:
PF0577317=RWD=PU(49.1=98.1)
A:
NA
C2:
PF0577317=RWD=FE(32.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACACTCACGTAAACACGGC
R:
CTCCAGCACTCCAGTCAGACT
Band lengths:
342-2140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]