MmuINT0155254 @ mm10
Intron Retention
Gene
ENSMUSG00000015790 | Surf1
Description
surfeit gene 1 [Source:MGI Symbol;Acc:MGI:98443]
Coordinates
chr2:26915596-26916006:-
Coord C1 exon
chr2:26915955-26916006
Coord A exon
chr2:26915730-26915954
Coord C2 exon
chr2:26915596-26915729
Length
225 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGTTGTAAAACTTCCTCCAGGGA
3' ss Score
6.82
Exon sequences
Seq C1 exon
GCCCAGTTCTGCGCTGTCAGGAGGAGCGTCTTTGGGTTTTCTGTCCGCTCAG
Seq A exon
GTGAGAAGGGCTCAGACCTGGGTGCGGTTGATGCACCTTTCTTTTCAGCCCACAGTGGTTTACTGCGTGTATTGTACTGGGAGAGGGTTGGGCACATGTGCTGTTAATTGCCACCTTTGCCATACATTCTCTGGGGTATAATCGGGCCTCTCGAGGAATTGGCCATCCAGTTCTGTTTGTTCTAGGGCTTCTGACCCCATGCCAGTGTTGTAAAACTTCCTCCAG
Seq C2 exon
GGATGGTCTGTAGGCCACGCAGGTGTTGCAGTTCTACTGCTGAAACAGCCGCCGCTAAAGCAGAGGACGATTCTTTTCTCCAGTGGTTCCTGCTTTTAATCCCTGCTACTGCTTTTGGCCTGGGGACTTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015790:ENSMUST00000015934:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.017
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0210410=SURF1=PU(41.2=31.8)
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTCTGCGCTGTCAGGAG
R:
CCAAGTCCCCAGGCCAAAAG
Band lengths:
180-405
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