MmuINT0134894 @ mm9
Intron Retention
Gene
ENSMUSG00000036202 | Rif1
Description
Rap1 interacting factor 1 homolog (yeast) [Source:MGI Symbol;Acc:MGI:1098622]
Coordinates
chr2:51928357-51928773:+
Coord C1 exon
chr2:51928357-51928386
Coord A exon
chr2:51928387-51928656
Coord C2 exon
chr2:51928657-51928773
Length
270 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
GTCTTCCGGCCTCGCTGCAGGGT
3' ss Score
8.23
Exon sequences
Seq C1 exon
ATCTTGGTCGTGGAGGAGCGGGCTGCACGC
Seq A exon
GTGAGTAAATAAGCGCGAGCCGGGAGCGGACGGCGGGCCCCGGGGCGGCGAGCTGCGGAGCGGACTTCCCGCGTGGGGGGTGAGGAGCGGGAGGCTCGGCTCGGCCCGGCCGGCGCCGCCTCTGCCCCCTCGCGGCCGTGCTGCCTGGGAAGCGGCGGCGGGAGCCGGGCAGGCGGGAGGCCGGCCTGCGAGCGCGCGGCCCGGCGTGCAGGTGAGGGCGCCGCGCGGGCCGTGCCACCGGTTACTGGGTGTCTTCCGGCCTCGCTGCAG
Seq C2 exon
GGTGGCGGCCGACATGACGGCCCCAGGTCGCAGCCCCCTGGAGCCGCTTCTGGAGACTTGGGAAGACCCCTCGGTGCCTCCGGGAGAGCAGACGGACGCCTACCTAACTCTGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036202-Rif1:NM_175238:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.927
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF122313=Rif1_N=PU(37.8=48.6),PF074086=DUF1507=PU(17.6=17.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTTGGTCGTGGAGGAGCG
R:
TCAGAGTTAGGTAGGCGTCCG
Band lengths:
143-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: