RnoINT0156056 @ rn6
Intron Retention
Gene
ENSRNOG00000028812 | Trim80
Description
tripartite motif protein 80 [Source:RGD Symbol;Acc:1311352]
Coordinates
chr10:103992690-103993668:+
Coord C1 exon
chr10:103992690-103992733
Coord A exon
chr10:103992734-103993003
Coord C2 exon
chr10:103993004-103993668
Length
270 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
GGTTTTCTCTGTCTTCTCAGGAC
3' ss Score
9.6
Exon sequences
Seq C1 exon
GGCAGCGAAGTATCTGGCTGTCATAGACATGCAGAAGATCTCAC
Seq A exon
GTAAGTTCAGGCTCCCTCCTAGGTGCCAAAGGGAGTGGCCCCTCCCATACCGTCTTGTCCTTCTGCCTTTCACCATCCTCCCCACAACCCAGGCTGGGACCAGGAACTATGATTCTCAGTGCCCACCCCCACAGGGGTTGGCTGATGACACAGCCCTGGTGCCCAATGGTGAGACAGCTGCTTCCAAAAGAATGATGTAAAAGGAGCCTATGACAGAAGGAGGTCATGCCCTGGCCCTCTGCCATGCCTGGGTTTTCTCTGTCTTCTCAG
Seq C2 exon
GACCAACCCAGGACAAATCCCCCTCAGAGCTCTCTACCCAGTCCTCCAGAACCTCACTCCAGCTCCTGATGAGCAGCAACAGCAGTCAACACTTGTTGGAAGACCAAGTCCTCTGTCCCATTTGCCTGGATGTGTTCCGCAACCCGGTCACCACCGCCTGCGGCCACAACTTCTGCATGACATGCCTTCAGAGTTTCTGGGACCACCAGGCTGACACTGGAGAGACTTACTATTGCCCCCAGTGCAGAGAGGCCTTTCCGAGCAGGCCCCGCCTCTGCAAGAACGTCATTCTCGGAGAGATGGTGGCTTGTTTCACCCTGGCCAAGAGCCAGACCTCAGGGCCCTTGTGGGGCCTGGCTGGCCCCACAGATGTGCCCTGTGACTTTTGCTCTCCTCAGAAGCTGAAGGCAACCAAGTCGTGCCTGCAGTGCATGGCTTCCTTGTGCGAGAAGCATCTGCACAGCCATTTTGAGGACCCGTTGTTCCAGGAACACCAGCTGTTGGACCCGGTGTGGGACCTCAAGAACCGCTTGTGCCGTAAGCATCGCAAGCTCCGGCAGATGTACTGCCGCACCGAGGGCAGCTGCGTGTGCGGGGCCTGCCTCCTGGAGGAGCACCAGAACCACGACACAACCCCGCTGGAGGATGAACGGGCCCGCAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028812:ENSRNOT00000065292:2
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=0.104
Domain overlap (PFAM):
C1:
PF155551=DUF4658=FE(28.3=100)
A:
NA
C2:
PF152271=zf-C3HC4_4=WD(100=19.8),PF0064319=zf-B_box=WD(100=18.5)
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
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCGAAGTATCTGGCTGTC
R:
TCTCTGCACTGGGGGCAATAG
Band lengths:
293-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]