DreINT0170296 @ danRer10
Intron Retention
Gene
ENSDARG00000037559 | uba1
Description
ubiquitin-like modifier activating enzyme 1 [Source:ZFIN;Acc:ZDB-GENE-040426-2009]
Coordinates
chr23:20728017-20729348:+
Coord C1 exon
chr23:20728017-20728097
Coord A exon
chr23:20728098-20729195
Coord C2 exon
chr23:20729196-20729348
Length
1098 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
GTGACCCTTTCTGTGTTCAGGTT
3' ss Score
10.46
Exon sequences
Seq C1 exon
AGGAACTGCCGGTATGACGGCCAGATTGCCGTCTTTGGGTCCAAGCTGCAGGAGCTGTTAGCCAAGCAGAGATATTTTCTG
Seq A exon
GTGAGAATCTAAAACTGGCTGTTTTTCAAAACTGAATGATTTCTCTATGCCAGATAAGGGACTGCACAATGCCTTGTCACCTTGAAGTTACATTGAACCAAACAAATAGCTTTGAATAGTTTATAACAAAACAAGCAAGTATTTGCTGATCCAAACTTTTTTTATGCATTTATTCCTCAATTATTTAGTGCTTAATTTTTACTAATACAGTCAAAAACTACATTTTAAATGGCTTAGAAAAAATTACAAATATATATTATGGAAAAAGTATTTGAAATGTTTTGGCAAATATTAAATTGAAATACTAAAATTACAGATGAAAGTATGAAAACTATAGAAAAATAACGTATGATAAGGATAAAGCATATTTAAAATTAAAACTGGACATTTAAAAAAAAGCTCATTCAAAACGGTTTGTGCTGAACAAAATGCCAGACAATAACATCAGCCACGTTTTGCTTTCAAACCATTGTAGATTTGTTTTTCATCTCGCTTTTAGTTATTTTAAGCCGCTGTTGTAAATTTGAAGAAGAGACAAACCAGGAGGATTTTTCCAATATCTTCAAAGCAAAATCGTTTTCCGGGCCTTGCTTGAAAGCATCACTAGGCCATTTGTTAGACAAAAGACACAGCCCTGCCTGGAACTGACAATATGCATTATTTTGGAGAAACAATACTGTCTTTTACATATAGGCAGTCTACCTTGATCCCTCAGGATGCATCTTAAAATGTAAAAGCCTAATTTATATATTAAAAGAAACTTGTAATCTTTCACCATCAAACAATATTGAAAAAAATAGTTCATGCTAGATTATTTTTGCCTTTAGTCCACAATTAATTGTTAAACTGAAACTACGAAAATAAAGCTTTATTTTTATTTTTTTTTTTGCTAGACAATAAGCTGAAATATTAATATAAAAAATTAAAACCATTTGTAAAAGTCAATAAATATAAAATTAGACAAATTAAGACTAAAATATTAAAGCAGAGGAAATTGATGCTTCAGCAACAGGTAGTTGTATCATTTACACAAAAAAGAACAAAAACCTCTGCTTTAGCATGTGTTGCGTTCACCTTAGTGACCCTTTCTGTGTTCAG
Seq C2 exon
GTTGGTGCTGGAGCCATTGGCTGTGAGCTGCTGAAGAACTTTGCTATGATGGGCTTGGCCAGTGGTGAAGGAGAGGTCATAGTCACTGACATGGACACCATTGAGAAGTCCAATCTCAATCGACAGTTCCTCTTCAGACCCTGGGATGTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000037559:ENSDART00000054691:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089916=ThiF=PU(4.2=22.2)
A:
NA
C2:
PF0089916=ThiF=FE(34.7=100)
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:
AGGAACTGCCGGTATGACG
R:
ACATCCCAGGGTCTGAAGAGG
Band lengths:
230-1328
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]