MmuINT0138656 @ mm10
Intron Retention
Gene
ENSMUSG00000047181 | Samd14
Description
sterile alpha motif domain containing 14 [Source:MGI Symbol;Acc:MGI:2384945]
Coordinates
chr11:95023259-95023615:+
Coord C1 exon
chr11:95023259-95023378
Coord A exon
chr11:95023379-95023459
Coord C2 exon
chr11:95023460-95023615
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
ACTCTCCCCATCTCTATCAGTTC
3' ss Score
7.42
Exon sequences
Seq C1 exon
GAATCTACCCTGAGCGATGACTCCACACCCCCCAGCAGCAGCCCCAAGATCCCCGGTGGTCCTCGACAGGAGACCAAGTGTTCCTATCCCTACCACACGCTGTCCCAGTCTTCGGATGAG
Seq A exon
GTGAGTGAGGCTGGCCTTTGTGCCTGCTGGGGGGGACCCAGCCGCAGGCCAGGCTTCCTGTACTCTCCCCATCTCTATCAG
Seq C2 exon
TTCCTGGATGAGTCCCTCCCTGCCGTACAACACTGGACCAGCCAGCAGGTGGGCCAGTGGCTACACAGCCTCAACCTGGAGCAGTATGCTGCCGAGTTTGCTGCCCGGCAGGTGGATGGGCCGCAGCTCCTGCAGCTGGACGGAAGCAAACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047181:ENSMUST00000055947:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.825 A=NA C2=0.558
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0764712=SAM_2=PU(66.2=82.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTCCCAGTCTTCGGATGA
R:
TTCAGTTTGCTTCCGTCCAGC
Band lengths:
177-258
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