DreINT0170683 @ danRer10
Intron Retention
Gene
ENSDARG00000013990 | ube2q2
Description
ubiquitin-conjugating enzyme E2Q family member 2 [Source:ZFIN;Acc:ZDB-GENE-040426-1919]
Coordinates
chr25:29019096-29020944:-
Coord C1 exon
chr25:29020437-29020944
Coord A exon
chr25:29019201-29020436
Coord C2 exon
chr25:29019096-29019200
Length
1236 bp
Sequences
Splice sites
5' ss Seq
ATAGTGCGA
5' ss Score
-2.18
3' ss Seq
TACTCTTGATGTTTTTGTAGGAG
3' ss Score
6.04
Exon sequences
Seq C1 exon
TCCACGCAGATCTCGATCACCCACTTCCCCTCTCTCGCATTATTTCTTGGCGGGCGTTGTTTTGTCGTCTCTCCGGCCTCCAGTTCGCCTCTCTCTCCCCGCCCCCTCTTTGTTGTTTCTCTCCTCCAGCCTCCCTCCGCCGCCGCGCGCTCACACACACGCACTCTCGCTGGATCAGCTGCGCGCTCGCGGTCTCCGTGCGTCCCTTCCCCCCGCGGCCTGGCTGCTGATGAGATGAGTGGAAGATGTCGGTGTCGGGGCTGAAGGCCGAATTAAAGTTCCTGGAGTCAATCTTTGACCCAAACCATGAGCGATTTCGAATAATCGACTGGAAGCCAGACGAACTGAGCTGCCAGTTTAATGTGACGGGAGAAAAGCTGCTGATTATTCACTGCAACATCACGGTAAGATCCACCAGCCCCGTGTGTAGGTTTACATGCGAACAAGGCAAGGCCGAGTGAAACAACACCACCCACAAGCCCCTGTTTGCTCGAATAAAGCCACGATA
Seq A exon
GTGCGAATAAAAGCATTTAGGGTGATCAGTGTTCAGTTTTATAATCAAAAAGATGTCAAAATCACTGCTAAACAAGCAGCGCGAGCTACGCTTAGCTTGCTGGTGTATTAGCTAACAAAGTTAACTGCGTTTGCTCTCGGTTTCACTTTGTTGGCTTAATAAAACCATCAGCTAATCGTCAACGTTATTTATTCTTGTGTACAGGAGATGGTTGACCAAGACCTGTGGATGTTTTGTATTCTGCGTCACTTTAAATTAGTTGTCATGTAATTAGCTTGTGTGCTAATTTGGCTTAGCTGGTAGTTTAGCTTGCTAAACGACGTTTTGGGGTGAACTTATTTTTTTAAAATCTTTTTATCGCGGATTTGGGATGTTGTTTGTGGATTATTTATCGAGCATTGAAACATTTTGTGTAAACACAACAGTTCGTTAAATCCTCGGCTAGCTAATTTCGCAATTTGTTTAGCTGGTTTGTCGAAGTTCTCCGTTCAGCTAACTTGGGCCTGCTACGAAATGCGTAGATTTAAAATGCTCGAAGTTTGTTCAGTTTTTCGCCATGTAAATGATTTGATCATAAATGTATAATATTTTCGTAACTGTTAATGTTGCCTTACATGTGCTAGCAACATTAGCGCGTTTTCAGTCATCGCGTTTATTTGCCATTTCGCATCTTTGAGCGAAATCTGCATGTATGTTGAGTGTATGCTAACTGCACTACATTATGAAGGAGTGTTGTCATCAGAACCTACATTGTTTTTGCAAAACGACGCCACTGCAGTGCAACTGGCTGCTGTTTTTTTGTGTGTTCTAGAGGCCAGTTAGTTTGCTGAACTTGTATACTGATTTGAGGTGCTATGAGGTCAGTCTATGGTCCTGACAAGCAAAAGAATATCACATCGCCATCATTTTGGCTCTCCCTTGATGGAAGACACAATGGGAGGAGATTTCTAACTAGTGGATGAGAACATTATGTTCACATGATTTTACGTGGAAGATCATCAGCTCTGACAAACACTTCTCTGAAATAAACAACACTGCGCGGGTCTGCTGTGGTCTTTTCTCATTGAGAGAAGAAGCTGCAGAGTTGGATTCATTGGTTTGGCAGCTGTTAATGTGGCTGTTTGTCATGCAAGTGGCTGAACTGAAATGAGAAGACTTTAGCAACCTTGTGAAAGGACAAATGGGTTTGATACGGGTATGAAGATGCTGATTTTGTTACTCTTGATGTTTTTGTAG
Seq C2 exon
GAGTCTTATCCTTCAACACCACCAATATGGTTTGTTGATTCTGATGATCCAAGTCTGACTGAAGTCCTTGAGCGACTGGAGGATGTCAGAAAAGGCAATGCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013990:ENSDART00000155506:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.229
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0577317=RWD=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGGAAGATGTCGGTGTCG
R:
TCCAGTCGCTCAAGGACTTCA
Band lengths:
352-1588
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]