MmuINT0152762 @ mm10
Intron Retention
Gene
ENSMUSG00000068882 | Ssb
Description
Sjogren syndrome antigen B [Source:MGI Symbol;Acc:MGI:98423]
Coordinates
chr2:69870385-69870833:+
Coord C1 exon
chr2:69870385-69870580
Coord A exon
chr2:69870581-69870677
Coord C2 exon
chr2:69870678-69870833
Length
97 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
TCTAAGTCATGTTTTTACAGCAG
3' ss Score
4.48
Exon sequences
Seq C1 exon
GGAATAATTCTCTTCAAAGAAAAGGCTAAGGAAGCACTTGAGAAAGCCAGAAATGCAAATAATGGTAACCTACTGTTAAGGAACAAAAAGGTGACTTGGAAAGTACTAGAAGGACATGCGGAAAAAGAAGCATTGAAAAAAATCACAGATGATCAGCAAGAATCCCTAAACAAATGGAAGTCAAAAGGAGGGCATG
Seq A exon
GTAATTCTCATTTTTGGTTATTTTACCTCATCTTTACATCTTTAGTTTCAGCAAACTTAAAAGTTTTTGAGTGAAGTTCTAAGTCATGTTTTTACAG
Seq C2 exon
CAGGTGGAAGATTTAAAGGAAGCCATGTTTTTACAGCAGCCCGCAGATTTAAAGGAAAAGGGAAGGGTAATAGGCCTGGTTATGCTGGGGCACCCAAAGGAAGAGGACAGTTTCATGGAAGGAGGACAAGATTTGATGATGATGATCGTCGTCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068882:ENSMUST00000090852:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.520 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF087776=RRM_3=PD(60.6=95.5)
A:
NA
C2:
NO
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:
AGGACATGCGGAAAAAGAAGCA
R:
CCCCAGCATAACCAGGCCTAT
Band lengths:
176-273
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