DreINT0168585 @ danRer10
Intron Retention
Gene
ENSDARG00000028379 | trub2
Description
TruB pseudouridine (psi) synthase family member 2 [Source:ZFIN;Acc:ZDB-GENE-040704-41]
Coordinates
chr6:41026044-41026763:-
Coord C1 exon
chr6:41026627-41026763
Coord A exon
chr6:41026528-41026626
Coord C2 exon
chr6:41026044-41026527
Length
99 bp
Sequences
Splice sites
5' ss Seq
TGGGTTAGT
5' ss Score
3.1
3' ss Seq
TAAAATCTGCTAATTTTCAGAGG
3' ss Score
5.34
Exon sequences
Seq C1 exon
ATATTCTCAAGTGGAACTGCAAACTCAGGAGGCTTATGAGCTTGCAGCGAGAGGTTTATTGTATCCTGATGGTAAAAGCCCACCTATTTTGACTGGCCTGCGATGCATAAAATTTAATCCACCTCATTTTACTTTGG
Seq A exon
GTTAGTACACTGAATGATGAATTTACATAAATGTGACTTTAAATCAGCTATATTTGTTGAGCCAAAAACCAATGTTCTTTAAAATCTGCTAATTTTCAG
Seq C2 exon
AGGTCCGGTGTGTAAATGAGACTCAGAAGTATCTGCGTAAATTGATTCATGAGGTTGGACTGGAGTTGCGGGCCTCTGCGGTCTGTACTAAAGTGCGAAGAACACGAGATGGACCCTTCAAGGTAGAGAACGCACTCACTCGACAACACTGGACTGCAGACAGTGTCTTACAAGCTATTAATCACTTTCGCAAGACTGCCCGCAAAATCAGGAAATCTGGGATGTACATGCAGAGCAATGTCCGGATGACCTTAGACGCAGATACCAGAGAGCAAACTCAGTCTGAACATATGAGTGGAGTGCGGGATGTACTTTCTGACATGATTCTGGAGAGAGAGACACCTGGAGAACCGAATGAGGGGAGAACAAAAAATTAAATCAACTGGGAATGATTTGAGTTCTGAGACATATTTACTTGTTCACTATAATTTATGTATTTGTTATGTTTTCATTATTGTGTGTCATTAAATGTGTATTTTAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028379:ENSDART00000134293:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.400
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=PD(8.2=31.9),PF0150913=TruB_N=FE(30.7=100)
A:
NA
C2:
PF0150913=TruB_N=PD(6.0=7.1)
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:
ACTGGCCTGCGATGCATAAAA
R:
ACCTTGAAGGGTCCATCTCGT
Band lengths:
170-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]