MmuINT0155296 @ mm10
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75640189-75640657:-
Coord C1 exon
chr10:75640456-75640657
Coord A exon
chr10:75640275-75640455
Coord C2 exon
chr10:75640189-75640274
Length
181 bp
Sequences
Splice sites
5' ss Seq
TTCGTAAGC
5' ss Score
5.42
3' ss Seq
AGGCACTGGATATTCTGCAGACT
3' ss Score
2.59
Exon sequences
Seq C1 exon
GGATGTGCGGGCGCTCTGGACCAACGATCACGCACTGGCCTGGCACCTGGGTGACGACTTCCGGGCAGACTCCGTAGCCTGGGCCCGAGCACAGTGCCTGGCCTGGGAGGCATTGGAAGACCAACTACCCAACTTCCTGACGGAGCTGCCAGACTGCCCCTGCACCCTGGCCCAGGCCAGGGCTGATTCTGGCCGCTTCTTC
Seq A exon
GTAAGCCCCTGAACCCAATAGGGCCCCAGAGAGCGGGAGGAGGACAGAAGGGGCCAACCTCCCTGACTGAGTTAGGGAGGCCGGCCAGGAGGTAGGGTGGGGTCAAAAGATTCCCCGGAGTTGGTTCCCGGGGGAACGAGGGAATGCAGAGCCCGGGTGACAGGCACTGGATATTCTGCAG
Seq C2 exon
ACTGACTATGGTTGTGACATTGAACATGGCAGCGTATGCACCTACCACCCAGGGGCTGTGCACTGTGTGCGCTCTGTGCAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342:ENSMUST00000095541:6
Average complexity
IR
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:
PF0378212=AMOP=PU(27.4=58.8)
A:
NA
C2:
PF0378212=AMOP=FE(19.2=100)
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:
CTCTGGACCAACGATCACGC
R:
CCCTGGGTGGTAGGTGCATA
Band lengths:
243-424
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