HsaINT0173461 @ hg19
Intron Retention
Gene
ENSG00000167112 | TRUB2
Description
TruB pseudouridine (psi) synthase homolog 2 (E. coli) [Source:HGNC Symbol;Acc:17170]
Coordinates
chr9:131083878-131084697:-
Coord C1 exon
chr9:131084579-131084697
Coord A exon
chr9:131084010-131084578
Coord C2 exon
chr9:131083878-131084009
Length
569 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TATTATCTCTGTGTGTTCAGGTC
3' ss Score
9.75
Exon sequences
Seq C1 exon
ATCTTCAAGTATGGGGTCTGCTGGCTTGTCGCGGCTGCATGGGCTTTTCGCGGTCTATAAGCCCCCGGGGCTAAAATGGAAGCACCTGCGGGATACAGTGGAGCTACAACTTCTGAAGG
Seq A exon
GTGAGTGCCTCGAACCAGACCCACGTTCCCGCTCTCGTTCTCTTGGAAGTCCATCTCCGCTTCTGGTCCTTACCCCAAAACAAAATCACGTGACCTATTCACCTGGGCAGAGCGCTTTCCCAAACGCCTGTTCTCTGTGCTTTCTTACTCCTCACTTTCCTCTGTTTTCCGAGGGGGAAACTGACTCAGTATTGTTCCTTGTCACACGGTTACTACGTTGTAGAGTCTGTTTGAATCCGCCTGTTTCTTAACTACTGCTATACTGCCCTCTGCACCATGGGCTTCTGCTTTGTCTTCTACATCATACTTCCCTGTTGTCTAATCCCCCAAGTGTTTGGACAGAACAAGATATTCCTGGTCAGCATCGTGGTGCACGCCTGTAATCCCAGCTACTCTGGAGGCTGAGGCAGGAGGATCGCTTGAGCCCAAGAGTTTGACGTTACAGTGAGCTATGATGGCGCCATTGCACTTCAGCCTGGGCTACAGAACGAGGCCCTGTCTCTTAAAAAATATTTTATATGTACATATATTTGTATGTATGTGTGTATATATTATCTCTGTGTGTTCAG
Seq C2 exon
GTCTCAATGCCAGGAAGCCTCCCGCTCCTAAACAGCGTGTTCGCTTCTTGCTGGGCCCCATGGAAGGCAGCGAAGAGAAGGAGCTGACCCTCACAGCCACCAGCGTACCCTCTTTCATCAACCATCCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167112-TRUB2:NM_015679:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.156
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAAGTATGGGGTCTGCTGG
R:
GTGGATGGTTGATGAAAGAGGGT
Band lengths:
246-815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)