RnoINT0156058 @ rn6
Intron Retention
Gene
ENSRNOG00000028812 | Trim80
Description
tripartite motif protein 80 [Source:RGD Symbol;Acc:1311352]
Coordinates
chr10:103997496-103998018:+
Coord C1 exon
chr10:103997496-103997591
Coord A exon
chr10:103997592-103997784
Coord C2 exon
chr10:103997785-103998018
Length
193 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
3' ss Seq
TCCCTTCACGTCTACCTCAGAAA
3' ss Score
7.41
Exon sequences
Seq C1 exon
GTGGAAGTTCGGAAGATTCAGGCCAATGTGGAGAATCAAATGCTAATCATTGCCTCGGACAGCCAGAAACACCAGGGACGAGTGAGTTTCCTCTCG
Seq A exon
GTAAGGCGAGCGAGCTAACACCACCCCAACCCAGGCTACCCCAGCATCTTCCCCGGGGCCCCTAGGACCTCCTAGAAGTACAGAGGATTATGGGGAGGGAGAAGAGTGGACAGAGACAGGATGCTTGAGGTGTCTAAGCACAGTGGGGTACAGGAGTGGGGTTCAGGGATACCTCCCTTCACGTCTACCTCAG
Seq C2 exon
AAACTGATTCAGACGATGCGAGAAGAGGTGAACACCTGCTTCTCAGAGATCCTCCATGAGGTTAAACAGCTGCAGATGAAGGTCTTGGATTTTGTGGAGAATGAGGAGACAGTTGCCCTGGGAATGCTGGGTAACTCCATGCAACAAAGCCACAGCCGGCTCCTGAAGTTGGAGGGGGACAGCGTCTGGCTCCACGGCCTGCTGGCCAACAAGAGCGATGAGCAGTTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028812:ENSRNOT00000065292:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AGAAACACCAGGGACGAGTGA
R:
ACTGCTCATCGCTCTTGTTGG
Band lengths:
258-451
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]