MmuINT0155255 @ mm10
Intron Retention
Gene
ENSMUSG00000015790 | Surf1
Description
surfeit gene 1 [Source:MGI Symbol;Acc:MGI:98443]
Coordinates
chr2:26915432-26915729:-
Coord C1 exon
chr2:26915596-26915729
Coord A exon
chr2:26915515-26915595
Coord C2 exon
chr2:26915432-26915514
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
AGCTCATGCTGTTTCTATAGGTC
3' ss Score
8.25
Exon sequences
Seq C1 exon
GGATGGTCTGTAGGCCACGCAGGTGTTGCAGTTCTACTGCTGAAACAGCCGCCGCTAAAGCAGAGGACGATTCTTTTCTCCAGTGGTTCCTGCTTTTAATCCCTGCTACTGCTTTTGGCCTGGGGACTTGGCAG
Seq A exon
GTGAAGATGGGGGTCGAATTTGGGTGGCTCCGAGGCTCGGACTCCACTGATACCTTAGCTTAGCTCATGCTGTTTCTATAG
Seq C2 exon
GTCCAACGTCGGAAATGGAAGCTGAAACTTATTGCAGAATTAGAGTCTCGAGTCATGGCTGAGCCCATCCCTCTACCAGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015790:ENSMUST00000015934:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=PU(41.2=31.8)
A:
NA
C2:
PF0210410=SURF1=FE(12.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAACAGCCGCCGCTAAAG
R:
CTGGTAGAGGGATGGGCTCAG
Band lengths:
174-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types