HsaINT0173467 @ hg19
Intron Retention
Gene
ENSG00000167112 | TRUB2
Description
TruB pseudouridine (psi) synthase homolog 2 (E. coli) [Source:HGNC Symbol;Acc:17170]
Coordinates
chr9:131071396-131073302:-
Coord C1 exon
chr9:131073166-131073302
Coord A exon
chr9:131072155-131073165
Coord C2 exon
chr9:131071396-131072154
Length
1011 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGT
5' ss Score
7.92
3' ss Seq
TCATTGTGTGTCCCTGGCAGAGG
3' ss Score
8.37
Exon sequences
Seq C1 exon
GTACTCCAACCTCGACCTGAAGACCCAGGAGGCCTATGAGATGGCCGTGAGAGGCCTGATCCGGCCCATGAACAAGTCCCCGATGCTGATAACTGGCATCCGATGCCTCTACTTTGCACCTCCGGAATTCCTCTTAG
Seq A exon
GTAGGTTGGCCAAGGAAGTTGGAGCAGTGAGATGGGACCCGTAGGTTTGGGAGTCACTCAGGAACGCTCTTGCAGAGGTCACTGTTGTCTGGCTCAGCTGAGGCCAGCACACGCCGGCCCTGATCTCTGCGGGCCAAGGCATCAGGTGCCGACTTCCTTCCCAGCCCTGGCCTGGACTTGGCTGATGACAGAGCTCGCAGAACAAAAGCTCTCCTATCTCTTGCCAAGTCACCCTTGGAAGCCAGACCTTACCAAGCAAAGGTTATATTTAGTGGCTTATTTCCAGAGCTGCCCATGTTTGAAGCTGTGAGGGCTCCATCAGACACAACTCTTACGTCCCCAGTCCCACCCAGCTCAGGCCCCTCTTATCTGTGTTCCTTTTGTCTCTGCCTGCGCCCGCCCCTTTTTTCTGTTGGTCATGTTAATGCCTGCTCCTCTGCTTGAGCACAGAACTCTGTTATTAAGATAACATCTTAATAACATTTTAAAGATAATCATTTATCTTTCTATAAATGATTTCTTTTACTCCTCATAACTCCCATTTTACAGATAGGGAAACCGAGTCTTAGTAAAAGGCAGGTTCTAACCTGGGCAAGATGGCGAGACCCTGTCTCTACAAAAAATAAAAAATTAGCCAGTTGTGATGGCTCAGAACGTCCCAGCTACTCCGGAGGCTGAGGCAGGTGGATCATGTGAGCCTAGGAGGTCAAGGCTGCAGTGATCTGTTATCACACCACTGCACTCCAGCCTGGGTGATGGAATGAGACCCTGTTGCCAAAAAAGGGCAGATTCTGACTTGGCAGGTCCCGGTGGGGCCTGAGGTTCTGCAAGTCTTAACACATTTCAGGTGGCACCCACAGGGCAGGTCCTCTGAATAGCACAACCTGGAGAGCTTAGGGGTCTTGCTAAGGTTGTTACACACCTAGGAGGTATCCAAGGGGTGTGCGTTCACAACCACACACTAGAGGCTGTGCTCTCACCACCATGTCTGTCATTGTGTGTCCCTGGCAG
Seq C2 exon
AGGTGCAGTGCATGCATGAGACGCAGAAAGAGCTGCGGAAGTTGGTTCATGAAATCGGCCTGGAACTAAAGACCACTGCTGTCTGCACCCAAGTGCGGCGCACGCGCGACGGCTTCTTCACGCTAGACAGTGCCCTCCTGAGGACCCAGTGGGACCTAACCAACATCCAGGATGCTATCCGGGCTGCTACCCCTCAGGTAGCTGCAGAGCTGGAGAAGAGCTTGAGCCCGGGGCTGGACACCAAGCAGCTCCCCAGTCCGGGATGGTCCTGGGACTCCCAGGGCCCGAGCTCTACCTTGGGGCTGGAGAGGGGTGCGGGGCAGTGAATGCCCAGGCAGCTCCTGGGGCAGTGGATGGATAAATAGAAGAACTGCTATGAGCTGGACCTGATAGCTGTGCAGAAAGTGAGAGCAGGGGCACCTTTTCTACGTAAGACACAAAACTCAAGCTGTAACAGAAAGGTCAATGGACTTGACCCAACTGAGAAGGAAAAACTTCTGTATGGAGGAAAAGACAGTAAACATGACAGACTGATAGAAAGTATTGGCAGACCAGGCGTGGTGGCGGGCACTTGTAATCCCAGCTACTCCCAAGGCTGAGGCAGGAGAATTGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGCGCTAGACGGCGCCTGTGAATAGCCACTGCACTCTAGTCTGGGGAACATATGAGACCCCTGCCATCTCAAAAAAAAAAAAATTCTCAATAAACTATGTGCCCACGAAAATTAAAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167112-TRUB2:NM_015679:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.222
Domain overlap (PFAM):
C1:
PF0150913=TruB_N=FE(30.7=100),PF0084917=PseudoU_synth_2=PD(22.0=55.3)
A:
NA
C2:
PF0150913=TruB_N=PD(6.0=8.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGACCCAGGAGGCCTATG
R:
CAAGCTCTTCTCCAGCTCTGC
Band lengths:
344-1355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)