DreINT0168582 @ danRer10
Intron Retention
Gene
ENSDARG00000028379 | trub2
Description
TruB pseudouridine (psi) synthase family member 2 [Source:ZFIN;Acc:ZDB-GENE-040704-41]
Coordinates
chr6:41028787-41029261:-
Coord C1 exon
chr6:41029200-41029261
Coord A exon
chr6:41028869-41029199
Coord C2 exon
chr6:41028787-41028868
Length
331 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAG
5' ss Score
5.2
3' ss Seq
TGTTTATTTTATATATGAAGGAC
3' ss Score
5.01
Exon sequences
Seq C1 exon
TATTAGGTGTTGGGAAAGGAAATAGTGTCCTGGAGAATCTGTGCAAATCACATGTAACCAGG
Seq A exon
GTAAAGGTTTTTTTTTTTAATGCTATTCTGTTGGATGCATTCATTGCTTATTTTTATATTTGTCCTAAATTGATATACTAGTCAACACTTGAATTGGTTCATCACCTTTAATCAAGATGTCCTAAAAATATTGAACAGCACCCATTTTTGTTTTAGGACAATTTTGGAAAAAAAAAATTTGATCCACTTCATATGTTGACTACTGTATATTTAACTAATAGATTTTTATTTTATACTATCTGATTTTTAACTTAACCCTGTAGATGTTTACTATACATGCATTTATGGCAATAATTTTATAATAACTGTTGTGTTTATTTTATATATGAAG
Seq C2 exon
GACTATACGATTGAGGGCGAGTTTGGAAAAGCCACCGATAATTTCAGTCACACTGGTCGGGTCATTGAGAAAACTACATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028379:ENSDART00000134293:4
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(10.9=100),PF0150913=TruB_N=FE(13.3=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=FE(14.7=100),PF0150913=TruB_N=FE(18.0=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]