MmuINT0149664 @ mm9
Intron Retention
Gene
ENSMUSG00000047793 | Sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:MGI Symbol;Acc:MGI:3045960]
Coordinates
chr1:95182589-95183600:+
Coord C1 exon
chr1:95182589-95182671
Coord A exon
chr1:95182672-95183504
Coord C2 exon
chr1:95183505-95183600
Length
833 bp
Sequences
Splice sites
5' ss Seq
CACGTGCGT
5' ss Score
7.39
3' ss Seq
TCACCCTTAGCTTCTCCTAGAAC
3' ss Score
1.7
Exon sequences
Seq C1 exon
GTTCTCAGAGCTTGTAGATGGAAGAGGAAGAGTGAGTGCCAGGTTTGGTGGCTTGCCCAGCAGAGCAGTAACTGTGAGATCAC
Seq A exon
GTGCGTATTGCAAACTTCCTGGCACCAACCTGGTAGCAACCCTAGTGGCCTCACTCCCCTTGCCCCTGGCATAAAAGATGTTGAGATCCTTAAAATCTGGATTTAAAGATTGCACTGGCCAGTCAGTCCTGGCTCTACTGGCAACCTCAATCCTGGCCGTGTGTGAGGGTTAGACTTCTAGGGTAGCAGGAAAGGTTCCTGCCAACTGCTTACCAGGTAAAGGGCAGTCCCCAAGTCTGCCTGGGAGAGGCCAGGTCCCTAACCTCATGGGATTCCCCAGCTCTATGGTGACTGAATGCTCAAGTGCAGAGAGCCGAGGGCATGAGTAAGCGAGTGGGCGGGCAGTGACAAGAGGGGACACCAAGTCTAGATGTGAGAGAAGGGATACCTGCAGGTAGGCAGGCTGAGCTATGGAGTACCAAGATAGGGATCTCCAGACAAACGAGCCAAGAGAAAATGCCTAGGGGCAGAGAGAAGTTCTGTAGGGATGGAAGGTTTGCAGCTGGGGCCAAGAACCCAGATGGCTGAAGATGCTGATAAGGAAGAGAAACCCCTGGCCCCACTCCTCAGAGAGCATGGCTGAGGGGAAAGGAAAGGAGAACCTGACCCTGGGCAGGACAGAGGCCCAGATATCAGCTGTATAACAGTGAAGCCCCTTAGGAAGCAGCTTCAGGAAAGCAGAAACCACGGCTTTCAGAGGGGCAGGGAGAATAAGGCCCAGCCTCCGCTGGGGGACAGTGCTGGAGCCACAGTGATTATTGCCAGTGTGTGAGATCAATGGGTGGACAAGGGCATGAAGCAAGGGCCATGTGGTCACCCTTAGCTTCTCCTAG
Seq C2 exon
AACCCACCACTCCGGTGCCACTCAAGAACACAGAGGCCCCTGAGCAGGTCCATCTGGCCCTCCAGCTACCCAAGAACAGCAGCAAAGACACAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047793-Sned1:NM_172463:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.632 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: