MmuINT0155298 @ mm10
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75639595-75640102:-
Coord C1 exon
chr10:75639834-75640102
Coord A exon
chr10:75639739-75639833
Coord C2 exon
chr10:75639595-75639738
Length
95 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
ATCTTCTGCTTTTGATTCAGCCT
3' ss Score
6.68
Exon sequences
Seq C1 exon
CCCCAGGTATGGCTCAGGCCAGCAATGCTGCTACACGGCAGCAGGGACACAGCTCCTGACTTCAGACTCGACAAGTGGCAGCACCCCTGACCGTGGCCACGACTGGGGTGCACCCCCATACCGGACTCCTCCCCGTGTGCCCGGCATGTCTCATTGGCTCTATGACGTCATCAGCTTCTATTACTGCTGTCTTTGGGCTCCTGAGTGTCCCCGTTATATGAAGCGCCGGCCCTCCAGTGACTGCCGCAACTACAGACCCCCACGCCTGG
Seq A exon
GTAGGTGCTGGCCTGGGTACCTGATCACAGAGGGAGGGTCTTGCCTGGGTGGGAAAGACCAAAGAAATCTACCTGATCTTCTGCTTTTGATTCAG
Seq C2 exon
CCTCTGCCTTCGGGGACCCCCATTTTGTCACCTTTGATGGCACCAGCTTCTCGTTCAGCGGCAATGGCGAATATGTGCTATTGGAGACCACCCTGAGTGATCTGAGAGTGCAGGGCCGGGCCCAGCCTGGGAGAATGCCCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342:ENSMUST00000095541:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.245
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
A:
NA
C2:
PF0009420=VWD=PU(28.7=98.0)
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:
TACTGCTGTCTTTGGGCTCCT
R:
AGGGTGGTCTCCAATAGCACA
Band lengths:
182-277
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