RnoINT0156954 @ rn6
Intron Retention
Gene
ENSRNOG00000043189 | Trub2
Description
TruB pseudouridine synthase family member 2 [Source:RGD Symbol;Acc:1359394]
Coordinates
chr3:8338484-8339892:-
Coord C1 exon
chr3:8339756-8339892
Coord A exon
chr3:8339070-8339755
Coord C2 exon
chr3:8338484-8339069
Length
686 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TGTGTGTCTGTGTCCCACAGAGG
3' ss Score
10.52
Exon sequences
Seq C1 exon
GTACTCCAACCTGGACCTGAAGTCCCAGGAGGCCTACGAGAGGGCTGTGCAAGGCGTGATCCGGCCCATGAACAAGTCCCCAATGCTCATCGCTGGCATCCGCTGCCTGCACTTTGCACCTCCTGAGTTTCTTTTGG
Seq A exon
GTAAGTCACCCAGGAAGCTGGAGTCACGTGTGGCATGCCCAGCCCTGAGTGGCTTCTTTCCACCAGGTCCAGGCTCAGCCTAACCCACAGGAACAGCACAAAGGCGATACTCTGTCTCCTGTCTGTTCCCAAAGCATGTGAAGCCAGCCCTTAAGAAGCAGAAGCTGGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGTTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCTGGAAAAAAAAGAAAAAAAAAAAAGGAAGAAGAAGCAGAAGCTGGGGCTGACAGCTCAGTTCCTGAGCAGTTCCACATTGTTCTAGGCCCTCAGACATGACTGTCACTTCCTGTCCCACCCAGCTCTGCCCCAGCCTCTTCCATGTTCCCTTGGCTTCTTCCCTGGGTGCCCCTCACTCTTGCTTGAGTAGACAAGTGAGTCAGTGTCTGCCAGAAGCCCAGCCCGCGTACAGCCTGGGGGGGAGGGTTGCTGGGGCCTGACCCCACAGGTGCAGGGGGCCTGCAGTCTGCACCACTGCCATGCGCTCAGCCCTACAGCAAAGCTAAAATGCATCTCTCGAAGGATGCTCCTTGTGGAGAGGAGTCCGAGGGACATGAATCCAGATCAGCTCGGTCCCTGCAGCTGTTCCTGACGGTCACATCTGTGTGTGTCTGTGTCCCACAG
Seq C2 exon
AGGTGCAGTGTATGCACGAGACACAGCAGCAGCTGAGGAGGCTGGTGCATGAAATCGGCCTGGAGCTGAAGACCACCGCTGTCTGCATGCAAGTGCGGCGCACTCGGGATGGCTTCTTCGGGCTGGACGATGCCCTCCTGAGAACCCAGTGGGACCTGCACAGCATTCAGGATGCTATTCAGACGGCAGCCCCCCGGGTAGCCAGAGAACTGAGAAAGAACTTGAGCCTAATGTCGGGCCACCAACAACAGCTCCCCAGTGCCGGGCAGCCTTGGGCTTCAAGGGTCCAAGCTCCACTTTGAAAGTGGGAGCCATGCAGGGTAGTAAGGCCAGGCAGGCGCCTGGATGTAGGGGCAAACAGGCTTTCAATAGTCAGAACTGGTCACTCTGCAGAGAGTGAGATCAAGGAGGGCCCTGAGCTGTCATCTCAGCAAAACAAAAGTACAGGAGGGAGCCTTCTTCCTGTCACACACAAACTAACCACAGAGGTGAGTGGGTAAGCTATCATCGCAGCTAGTTGGGAGGCCCAGGTTAGAATCTCGACAGTTCAAGGCCAGCCTAGGGTTACTTAGTGAAACCTTGACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000043189:ENSRNOT00000064638:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=PD(9.7=38.3),PF0150913=TruB_N=FE(30.7=100)
A:
NA
C2:
PF0150913=TruB_N=PD(6.0=8.9)
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:
GCACTTTGCACCTCCTGAGTT
R:
CTGCATGGCTCCCACTTTCAA
Band lengths:
348-1034
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]