MmuINT0155299 @ mm10
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75639342-75639738:-
Coord C1 exon
chr10:75639595-75639738
Coord A exon
chr10:75639501-75639594
Coord C2 exon
chr10:75639342-75639500
Length
94 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CATTGTGAACCCCCACCTAGGCA
3' ss Score
5.1
Exon sequences
Seq C1 exon
CCTCTGCCTTCGGGGACCCCCATTTTGTCACCTTTGATGGCACCAGCTTCTCGTTCAGCGGCAATGGCGAATATGTGCTATTGGAGACCACCCTGAGTGATCTGAGAGTGCAGGGCCGGGCCCAGCCTGGGAGAATGCCCAATG
Seq A exon
GTGAGGCAGGGCCCTGTGGCCTCTACGTTGGGGGGTGGCACTGCTGGATCATCCAGGGTAGTAGACAAGAGCCCCATTGTGAACCCCCACCTAG
Seq C2 exon
GCACCCAGGCCCGTGGCACAGGGCTGACTGCAGTGGCCGTCCAAGAAGACAATTCGGATGTGATAGAGGTGCGGTTAGCTGGCGGGTCTCGGGTCTTGGAAGTGTTGCTGAATCAGAAAGTGCTCAGTTTCACTGAACAAAATTGGATGGACCTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342:ENSMUST00000095541:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.185
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(28.7=98.0)
A:
NA
C2:
PF0009420=VWD=FE(31.7=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:
CCTTTGATGGCACCAGCTTCT
R:
ATTGTCTTCTTGGACGGCCAC
Band lengths:
167-261
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