MmuINT0155263 @ mm9
Intron Retention
Gene
ENSMUSG00000014873 | Surf2
Description
surfeit gene 2 [Source:MGI Symbol;Acc:MGI:98444]
Coordinates
chr2:26774393-26774878:+
Coord C1 exon
chr2:26774393-26774575
Coord A exon
chr2:26774576-26774711
Coord C2 exon
chr2:26774712-26774878
Length
136 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGC
5' ss Score
6.58
3' ss Seq
CAAGTGTTTGTTCCTTCCAGCTG
3' ss Score
8.17
Exon sequences
Seq C1 exon
ATGAAGAGTGTCAGAAACAAGGTGTGGAATATGTCCCTGCCTGCCTTCTACACAAGAGGAAGAAGAGAGAGGACCAGACGAACAGTGATGAACTCCCAGGCCAGAGAACAGGTTTCTGGGAGCCAGCTTCCAGTGACGAGGAAGACGCCTTGAGTGACGACAGCATGACAGACCTATACCCAC
Seq A exon
GTAAGCAGACCCAGTCCAATCCCTGCCCCTGTCTCCTGCTAGGTACCTTGTGATCCTGCTGTGAGCCACTTTTCCTAAGAAAGGGAGGGATGCTTTTACCTGTGACACAGCTCAGCCAAGTGTTTGTTCCTTCCAG
Seq C2 exon
CTGAGCTGTTCACAAAGAGAGAACTAGGCAAGCCTAAGAACGATGACACTCCTGAAGACTTTCTGACAGACCAACAGGATGAGAAGCCGGAGCATTCAGAAGAGAAGAGCTTTAGAGAGAGGGAAGAGGCCAGAGTGGGCCACAAGAGGGGTCGTAAACTGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014873-Surf2:NM_013678:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(24.1=100)
A:
NA
C2:
PF054776=SURF2=FE(21.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATGTCCCTGCCTGCCTTCT
R:
CGGCTTCTCATCCTGTTGGTC
Band lengths:
244-380
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: