MmuINT0138815 @ mm10
Intron Retention
Gene
ENSMUSG00000009614 | Sardh
Description
sarcosine dehydrogenase [Source:MGI Symbol;Acc:MGI:2183102]
Coordinates
chr2:27239367-27239738:-
Coord C1 exon
chr2:27239615-27239738
Coord A exon
chr2:27239468-27239614
Coord C2 exon
chr2:27239367-27239467
Length
147 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGA
5' ss Score
5.59
3' ss Seq
GTTCTCCATTCTGCCTCCAGGAG
3' ss Score
10.32
Exon sequences
Seq C1 exon
GTCATTGAAAACTGTGCGGTGACTGGCATCCGTGTGCGGACGGACGACTTTGGAGTGCGGCGGGTGGCAGCTGTGGAGACAGAGCATGGCTCCATCCAGACACCCTGTGTGGTCAACTGTGCAG
Seq A exon
GTTGGAACGCTGTTCCCCTGACTCCCACAGCTCAGGTCCTACCCACAAAGGACGCCTTTCTTGGGTGGGAAGTCAGGGTAGGCAGGAATTCTGAGGTGCCCCGTGCCCACTCGGGTGGCAGCTGAGTGTTCTCCATTCTGCCTCCAG
Seq C2 exon
GAGTGTGGGCGAGCAAGGTGGGCCGCATGGCTGGAGTGAAGGTCCCGCTGGTGGCCATGCACCATGCTTACGTCGTCACTGAGCGCATCGAGGGGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009614:ENSMUST00000102886:5
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:
PF0126619=DAO=FE(11.4=100)
A:
NA
C2:
PF0126619=DAO=FE(9.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAACTGTGCGGTGACTGG
R:
GGATCCCCTCGATGCGCTC
Band lengths:
218-365
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