RnoEX0075844 @ rn6
Exon Skipping
Gene
ENSRNOG00000054901 | Rif1
Description
replication timing regulatory factor 1 [Source:RGD Symbol;Acc:1562474]
Coordinates
chr3:37600857-37602999:+
Coord C1 exon
chr3:37600857-37600935
Coord A exon
chr3:37602041-37602133
Coord C2 exon
chr3:37602903-37602999
Length
93 bp
Sequences
Splice sites
3' ss Seq
CTTACTATCTTTTTTGACAGGGT
3' ss Score
8.45
5' ss Seq
CAGGCATGT
5' ss Score
2.05
Exon sequences
Seq C1 exon
TCGTATGACAGGAGAAGAAGGAAAAGAAGTTATTGCAGAAATCGAGAAAAACCTTCCTCGGTTGTACACGGTTTTAAAG
Seq A exon
GGTCTCTAGTCCAGGCTTGCCTTGGACTTCCTAGATAGCTGAGGATGACCTTGAACTTCTGATCCTCCTGCCTCCCAAGTGCTGGGATCACAG
Seq C2 exon
GCTCACATTTGCAGTCAGAGCTCAGAACTGAGTAGTGCTGCTCTACAAGCCTTGGGATTTTGTTTATATAATCCCAGAATTACCTCAGGATTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054901_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.259 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF122313=Rif1_N=FE(7.1=100)
A:
NO
C2:
PF122313=Rif1_N=FE(8.8=100)
Main Inclusion Isoform:
ENSRNOT00000090575fB12454
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
TCGTATGACAGGAGAAGAAGGA
R:
TGATAATCCTGAGGTAATTCTGGGA
Band lengths:
175-268
Functional annotations
There are 1 annotated functions for this event
PMID: 34736895
Ectopic expression of Rif1 lacking N-terminal domain results in upregulation of 2C transcripts. This appears to be caused by dominant negative inhibition of endogenous Rif1 protein localization at the nuclear periphery through formation of hetero-oligomers between the N-terminally truncated and endogenous forms. In murine 2-cell embryos, most of Rif1-derived polypeptides are expressed as truncated forms in soluble nuclear or cytosolic fraction, and are likely non-functional. Toward the morula stage, the full-length form of Rif1 gradually increased. Note: this exon is one possible isoform that is truncated at the N-term; however, this paper does not show any specific event.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]