DreINT0168584 @ danRer10
Intron Retention
Gene
ENSDARG00000028379 | trub2
Description
TruB pseudouridine (psi) synthase family member 2 [Source:ZFIN;Acc:ZDB-GENE-040704-41]
Coordinates
chr6:41026627-41026923:-
Coord C1 exon
chr6:41026851-41026923
Coord A exon
chr6:41026764-41026850
Coord C2 exon
chr6:41026627-41026763
Length
87 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGA
5' ss Score
5.23
3' ss Seq
CATATTATATCTATATTCAGATA
3' ss Score
6.75
Exon sequences
Seq C1 exon
ACCATATTACCCATGATAAGCTGGAAAGAGTTCTTGCCATGTTACAGGGATCCAATCAGAAAGCCTTGATCAC
Seq A exon
GTGAGACACTTTAAAAATATTAGCCTACATTTCCACATTGCTTAATTCATTCTATATTTCTGAGAATCATATTATATCTATATTCAG
Seq C2 exon
ATATTCTCAAGTGGAACTGCAAACTCAGGAGGCTTATGAGCTTGCAGCGAGAGGTTTATTGTATCCTGATGGTAAAAGCCCACCTATTTTGACTGGCCTGCGATGCATAAAATTTAATCCACCTCATTTTACTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028379:ENSDART00000134293:6
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:
PF0084917=PseudoU_synth_2=FE(13.0=100),PF0150913=TruB_N=FE(16.0=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=PD(8.2=31.9),PF0150913=TruB_N=FE(30.7=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:
AGCTGGAAAGAGTTCTTGCCA
R:
TTTTATGCATCGCAGGCCAGT
Band lengths:
167-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]