MmuINT1032490 @ mm10
Intron Retention
Gene
ENSMUSG00000014873 | Surf2
Description
surfeit gene 2 [Source:MGI Symbol;Acc:MGI:98444]
Coordinates
chr2:26916367-26916859:+
Coord C1 exon
chr2:26916367-26916503
Coord A exon
chr2:26916504-26916704
Coord C2 exon
chr2:26916705-26916859
Length
201 bp
Sequences
Splice sites
5' ss Seq
AAGGTCGGA
5' ss Score
4.85
3' ss Seq
GACCAGATGCTCATCCGCAGGTT
3' ss Score
5.45
Exon sequences
Seq C1 exon
TTCCGGGACGGCGCTCTGTCTCACGTGGTGGCTGCGGCGTCAGATGGGCATCTCCGATCATGGACGAACCACCCTCTGATGTGCTTGCATTCTTGCGCCAGCACCCCAGCTTGAGACTACTGCCCAACACCCGCAAG
Seq A exon
GTCGGAAGAGAACCGTGACCGGAAGAGTAGGGCCAGGAAGGAACGGGATCTGGGAGGAGCGGAACCTCGGAGGACCGACAGTGGCCAGAAAGGAGGGGGACCCGGGAGTATTGTGCCTGGAAAGCGTGGGACCTGGGAGGACAGTGCAGGGAAGGGGCGGAGCTGGCAAGAACCACCTTCTGACCAGATGCTCATCCGCAG
Seq C2 exon
GTTCGCTGCTCCCTAACTGGCCATGAGCTGCCCTGCCGTCTGCCCGAGCTCCAGGAATACACCCGCGGCAAGAAGTACCAACGGCTGTCAAGTTCCTTCTCTAACTTCGATTACGCAGCTTTCGAGCCACACATTGTGCCCAGCACAAAGAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014873:ENSMUST00000015017:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF054776=SURF2=PU(9.9=96.2)
A:
NA
C2:
PF054776=SURF2=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGCGCTCTGTCTCAC
R:
CGATTCTTTGTGCTGGGCA
Band lengths:
286-487
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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