MmuALTA0017625-3/4 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000015790 | Surf1
Description
surfeit gene 1 [Source:MGI Symbol;Acc:MGI:98443]
Coordinates
chr2:26771116-26771526:-
Coord C1 exon
chr2:26771475-26771526
Coord A exon
chr2:26771250-26771289
Coord C2 exon
chr2:26771116-26771249
Length
40 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TCCAGTTCTGTTTGTTCTAGGGC
3' ss Score
9.61
Exon sequences
Seq C1 exon
GCCCAGTTCTGCGCTGTCAGGAGGAGCGTCTTTGGGTTTTCTGTCCGCTCAG
Seq A exon
GGCTTCTGACCCCATGCCAGTGTTGTAAAACTTCCTCCAG
Seq C2 exon
GGATGGTCTGTAGGCCACGCAGGTGTTGCAGTTCTACTGCTGAAACAGCCGCCGCTAAAGCAGAGGACGATTCTTTTCTCCAGTGGTTCCTGCTTTTAATCCCTGCTACTGCTTTTGGCCTGGGGACTTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015790-1-4,1-3,1-2,1-1-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.022
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0210410=SURF1=PU(6.4=31.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGGTTTTCTGTCCGCTCAG
R:
GCCAAAAGCAGTAGCAGGGAT
Band lengths:
140-180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: