GgaINT0126187 @ galGal4
Intron Retention
Gene
ENSGALG00000004920 | TRUB2
Description
TruB pseudouridine (psi) synthase family member 2 [Source:HGNC Symbol;Acc:HGNC:17170]
Coordinates
chr17:4988152-4988490:+
Coord C1 exon
chr17:4988152-4988213
Coord A exon
chr17:4988214-4988408
Coord C2 exon
chr17:4988409-4988490
Length
195 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TCCCTTTGCTTCTCTCGGAGGTT
3' ss Score
0.22
Exon sequences
Seq C1 exon
TGCTCGGCGTGGGCCACGGCAACAAACTCCTGAGCCACCTGTACAGCTGCCACCTGAGCAAG
Seq A exon
GTAGGCAGGCGCTGCGCAGCGCCGCGGGCGCACCGAGCGGCCCCGGGATGGGCTCTGAGTCTCAGTGCCACCCCGGAGGCGTTCCGGACCCGCGGGGCCGTGGGGGCGCTGGGCCGGGCTGACGGCCGGACGTGATGCTGCTCCGTTGCTCCGAACCTTCCTGTGATGGGTTTACTCCCTTTGCTTCTCTCGGAG
Seq C2 exon
GTTTACACGGTCAGGGGGCAGTTTGGTAAAGCTACCGAGGACTTCTCGGACACGGGGAAGCTGATAGAGAAGACAACGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004920:ENSGALT00000007872:4
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:
PF0150913=TruB_N=FE(13.3=100)
A:
NA
C2:
PF0150913=TruB_N=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACGGCAACAAACTCCTGAG
R:
CAAACGTTGTCTTCTCTATCAGCT
Band lengths:
131-326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]