HsaINT1045405 @ hg38
Intron Retention
Gene
ENSG00000167112 | TRUB2
Description
TruB pseudouridine synthase family member 2 [Source:HGNC Symbol;Acc:HGNC:17170]
Coordinates
chr9:128321599-128322742:-
Coord C1 exon
chr9:128322300-128322742
Coord A exon
chr9:128321731-128322299
Coord C2 exon
chr9:128321599-128321730
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
CGGCCTTTCGAGGGGAAACATCGCTTCACGGGCAGAAGGCATGTAGGCCAAGTAGGCGAAGGAAACGCACGCGAACTGTCTACCGTCTACGTCCACCGATCCAAGACTCTCGCCATGTCACCTCGCCCCAGAAAGTGTCTGCAAAGGACACGCAACCACGCTCACTCAGCGCCGGGCCCTATTTCCTTCTCCACAGCCGGTTTTCCCCGAAGACTATAAAATGCGAACCTCTTCCGGCTGTGGAACATGGCGGCGCCCGTGGAAAGGACCACATTTGGGGGCGGGGCCTGGCGGTACTTCCGTCCAGGTCCAGCGGGTGCTGTGATCTTCAAGTATGGGGTCTGCTGGCTTGTCGCGGCTGCATGGGCTTTTCGCGGTCTATAAGCCCCCGGGGCTAAAATGGAAGCACCTGCGGGATACAGTGGAGCTACAACTTCTGAAGG
Seq A exon
GTGAGTGCCTCGAACCAGACCCACGTTCCCGCTCTCGTTCTCTTGGAAGTCCATCTCCGCTTCTGGTCCTTACCCCAAAACAAAATCACGTGACCTATTCACCTGGGCAGAGCGCTTTCCCAAACGCCTGTTCTCTGTGCTTTCTTACTCCTCACTTTCCTCTGTTTTCCGAGGGGGAAACTGACTCAGTATTGTTCCTTGTCACACGGTTACTACGTTGTAGAGTCTGTTTGAATCCGCCTGTTTCTTAACTACTGCTATACTGCCCTCTGCACCATGGGCTTCTGCTTTGTCTTCTACATCATACTTCCCTGTTGTCTAATCCCCCAAGTGTTTGGACAGAACAAGATATTCCTGGTCAGCATCGTGGTGCACGCCTGTAATCCCAGCTACTCTGGAGGCTGAGGCAGGAGGATCGCTTGAGCCCAAGAGTTTGACGTTACAGTGAGCTATGATGGCGCCATTGCACTTCAGCCTGGGCTACAGAACGAGGCCCTGTCTCTTAAAAAATATTTTATATGTACATATATTTGTATGTATGTGTGTATATATTATCTCTGTGTGTTCAG
Seq C2 exon
GTCTCAATGCCAGGAAGCCTCCCGCTCCTAAACAGCGTGTTCGCTTCTTGCTGGGCCCCATGGAAGGCAGCGAAGAGAAGGAGCTGACCCTCACAGCCACCAGCGTACCCTCTTTCATCAACCATCCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167112:ENST00000372890:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.163
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTCCACAGCCGGTTTTCC
R:
GTGAGGGTCAGCTCCTTCTCT
Band lengths:
352-921
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains