MmuINT0155260 @ mm10
Intron Retention
Gene
ENSMUSG00000015790 | Surf1
Description
surfeit gene 1 [Source:MGI Symbol;Acc:MGI:98443]
Coordinates
chr2:26913383-26913658:-
Coord C1 exon
chr2:26913577-26913658
Coord A exon
chr2:26913506-26913576
Coord C2 exon
chr2:26913383-26913505
Length
71 bp
Sequences
Splice sites
5' ss Seq
CTGGTTAGT
5' ss Score
6.32
3' ss Seq
ATAATCTCTTTCAACCACAGGTA
3' ss Score
9.97
Exon sequences
Seq C1 exon
ACAGCACAGCCCCCGGCGGGCCCATCGGAGGACAGACGAGAGTGACTCTGCGCAATGAGCACATGCAGTACATCCTTACCTG
Seq A exon
GTTAGTCCTGCTGCCTGCTACCCCCTCCACCCACCCCACCCCGCACAGGCTATAATCTCTTTCAACCACAG
Seq C2 exon
GTACGGACTGTGTGCGGCCACATCATATTTGTGGTTCCAAAAATTTGTACGTCGGACACCCATCATGTGAAGTAAGGAGCCTGTTCCCAACAACCATAAAATAAAGATCTTGCTATGTAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015790:ENSMUST00000015934:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=PD(12.3=92.9)
A:
NA
C2:
PF0210410=SURF1=PD(2.8=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCCATCGGAGGACAG
R:
ATTTTATGGTTGTTGGGAACAGGC
Band lengths:
167-238
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