RnoINT0156055 @ rn6
Intron Retention
Gene
ENSRNOG00000028812 | Trim80
Description
tripartite motif protein 80 [Source:RGD Symbol;Acc:1311352]
Coordinates
chr10:103992309-103992733:+
Coord C1 exon
chr10:103992309-103992587
Coord A exon
chr10:103992588-103992689
Coord C2 exon
chr10:103992690-103992733
Length
102 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TCTTTTCCTTCTTGGCCCAGGGC
3' ss Score
8.12
Exon sequences
Seq C1 exon
GGCCCTGGGTGCTTGCGGCTACTCACTCCGCCTGGAGAGATGGAGACGCTGGAGGTGAGGACCCATGCACAGAGGAGCACAGTGCACTGGCACCTCATAGCACTGTGGTCTGCCCCATGGTCTGGACACCTGTGTCCTGATGACATCACAGGCGGGATGCACCTGAATTATGACATCAGCGAAACTTGGGTCATTCTTAAGGAAAGGGCATCTGGACAGGGAGACCATGAAACAGCAGCCACAGAGAACGGTGAGAAGACGGCGGTCACCAGTCCACAG
Seq A exon
GTAGGGTACAAGAGGATGGGGGATACCCCCAGCAGCTGCTGAGGGAGGCTGCGGTAGGTCCTGGTACTTGAGCCTCCATGGGTCTTTTCCTTCTTGGCCCAG
Seq C2 exon
GGCAGCGAAGTATCTGGCTGTCATAGACATGCAGAAGATCTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028812:ENSRNOT00000065292:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.631 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF155551=DUF4658=PU(64.2=91.9)
A:
NA
C2:
PF155551=DUF4658=FE(28.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
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:
GAGGACCCATGCACAGAGGAG
R:
GACAGCCAGATACTTCGCTGC
Band lengths:
245-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]