MmuINT0152767 @ mm9
Intron Retention
Gene
ENSMUSG00000068882 | Ssb
Description
Sjogren syndrome antigen B [Source:MGI Symbol;Acc:MGI:98423]
Coordinates
chr2:69705329-69705609:+
Coord C1 exon
chr2:69705329-69705436
Coord A exon
chr2:69705437-69705508
Coord C2 exon
chr2:69705509-69705609
Length
72 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TATTTATTTGTCCTTTACAGGGG
3' ss Score
10.42
Exon sequences
Seq C1 exon
AAAGGTTTCCCAACTGACGCCACCCTTGATGATATAAAAGAATGGCTAGACGATAAAGGCCAAATACTGAATATTCAAATGAGAAGAACATTACACAAAACATTTAAG
Seq A exon
GTATGATAATTTGATGTAGACTTTCTGATTGTGACATATCACTGTAAGGAAATATTTATTTGTCCTTTACAG
Seq C2 exon
GGGTCAATATTTGCTGTGTTTGATAGTATTCAGTCTGCAAAGAAGTTTGTGGAGATCCCTGGCCAGAAGTACAAAGACACTAACCTGCTAATACTCTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068882-Ssb:NM_009278:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0188511=PTS_2-RNA=PD(26.3=86.1),PF0007617=RRM_1=FE(83.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(42.0=85.3)
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:
AAAGGTTTCCCAACTGACGCC
R:
TACTTCTGGCCAGGGATCTCC
Band lengths:
179-251
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: