RnoINT0161644 @ rn6
Intron Retention
Gene
ENSRNOG00000011294 | Usp33
Description
ubiquitin specific peptidase 33 [Source:RGD Symbol;Acc:1307848]
Coordinates
chr2:257568613-257569050:+
Coord C1 exon
chr2:257568613-257568823
Coord A exon
chr2:257568824-257568996
Coord C2 exon
chr2:257568997-257569050
Length
173 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TCTTGTGTTTGCTTTCCTAGGGT
3' ss Score
10.32
Exon sequences
Seq C1 exon
TATTTTATCTTTTGCTTTAACCATTTTTGGCTTGCTAAGAATTTGTAATTAAGTTTTGGGTCACCTTTCCTGTAGGTTTTGCCTGATTGGAAAAGCCTTGAGAAAGAGAAAAAAAAAAAAAACTAAGAAAATGACGACTTTTCGAAATCATTGTCCACATTTGGATTCAGTTGGTGAAATAACAAAAGAGGATTTGATACAAAAATCTCAT
Seq A exon
GTAAGTCCTATAGTAGTCATCCCTTAAATTGCTGCACTCACTTTCCTCTTAAATACATTTAAGTAAATTAGTAGAATACTCTGTATCATGTTTAAAGATATATGTCGTTATGGTGAATTGTGTATGTTTGACTGCACTGGCACAGCAAATGTCTCTTGTGTTTGCTTTCCTAG
Seq C2 exon
GGTGCTTGTCAGGACTGTAAAGTCAGAGGACCAAACCTGTGGGCATGCCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011294:ENSRNOT00000066125:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0214814=zf-UBP=PU(23.1=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTTTAACCATTTTTGGCTTGCT
R:
CTAGGCATGCCCACAGGTTTG
Band lengths:
251-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]