MmuINT0155301 @ mm10
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75637965-75638595:-
Coord C1 exon
chr10:75638347-75638595
Coord A exon
chr10:75638238-75638346
Coord C2 exon
chr10:75637965-75638237
Length
109 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
AGTGACACCTGTCTCCCCAGGGG
3' ss Score
7.57
Exon sequences
Seq C1 exon
GCATGTTCCTGTCAGTGGCCGCTCAGGATAAGGTGTCAATCATGTTGTCATCGGGGGCTGGCCTCGAGGTCGGTGTACAAGGTCCTTTCCTGAGTGTGAGCATTCTGTTGCCTGAGAAGTTTCTGACCCACACCCGTGGTCTCCTGGGGACACTCAACAATAACCCCAGGGATGACTTCACCCTGCGCAATGGGCAGGTCCTGCCCCTGAATGCCAGTGCTCAGCAGGTGTTCCAGTTTGGAGCCGACT
Seq A exon
GTGAGTGACCCAGGGCAGGGAGGGAGAAGAGGGATTGGTCAGGGTGACACAGTGGGTCAAGGAGAGAAACTTGTCTGTGCCCACACAAGAGTGACACCTGTCTCCCCAG
Seq C2 exon
GGGCTGTTTCCAACACGTCTTCCCTGTTTACTTATGACTCTTGGCTTCTGGTCTACCAATTCGTGTACGGACCCAAGCACAACCCCAACTTCAAACCACTCTTCCCTGATGAGACCACACTCAGCCCCAGCCAGACAGAAGATGTGGCCAGACTGTGTGAGGGTGACCGTTTCTGCATCCTTGATGTGATGAGCACAGGAAGCTCGAGCGTGGGCAACGCCACCCGGATTGCCCACCAACTGCACCAGCACCGTCTGAAGAGCCTGCAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342:ENSMUST00000095541:11
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=0.098
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(38.9=77.4)
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:
GATGACTTCACCCTGCGCAAT
R:
GAAACGGTCACCCTCACACAG
Band lengths:
252-361
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