RnoINT0127646 @ rn6
Intron Retention
Gene
ENSRNOG00000033378 | Rnf123
Description
ring finger protein 123 [Source:RGD Symbol;Acc:2301394]
Coordinates
chr8:116829612-116829979:-
Coord C1 exon
chr8:116829837-116829979
Coord A exon
chr8:116829707-116829836
Coord C2 exon
chr8:116829612-116829706
Length
130 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TCTACCCACTACTAATCCAGATG
3' ss Score
4.89
Exon sequences
Seq C1 exon
GACAGAGCAAGCCACATCTGTGCTCCTGGCTGATCCCTGCTTCCAGCTCCGCTCTATACGCTATCTCCTGGGGCAGCCAGAGCCCCTAGCACCTGGCTCCGCCTTGCCTGCCCCTGACCGGAAACGCTTCTCTCTACAGAGCT
Seq A exon
GTAAGTGGACCAGGGGTGGGTCAGGAAAGAGTTGCAGGATCCTCAATAGCAAATTCCCTGTCTGGGAGTATTCAAGAGGCACTGAGTTCTAGGACTACGGGGGTCCTAATTCTACCCACTACTAATCCAG
Seq C2 exon
ATGCAGATTACATCAGTGCTGAGGAGCTGGCCCAGGTGGAACGGATGCTGGCTCACCTGACCGCGGCATCGGCCCAGGCAGCAGCTGCCTCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033378:ENSRNOT00000043825:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF042167=FdhE=PU(23.9=53.1)
A:
NA
C2:
PF042167=FdhE=FE(28.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGCAAGCCACATCTGTG
R:
GATGCCGCGGTCAGGTGA
Band lengths:
212-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]