MmuINT0161500 @ mm10
Intron Retention
Gene
ENSMUSG00000026939 | Tmem141
Description
transmembrane protein 141 [Source:MGI Symbol;Acc:MGI:1098773]
Coordinates
chr2:25621608-25622005:-
Coord C1 exon
chr2:25621934-25622005
Coord A exon
chr2:25621675-25621933
Coord C2 exon
chr2:25621608-25621674
Length
259 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
TCCCCGCCCCCTAATCCCAGGGA
3' ss Score
7.8
Exon sequences
Seq C1 exon
GGCAGAACCTGACCAACCATGGTGAATCTGGGCTTGTCCCGTGTGGATGACGCCGTGGCCGCCAGGCACCCG
Seq A exon
GTGAGAAGGCTAGCCTGGGGGCCAGAGAGCTGACCCTACGATGCTGACCTGAGGCAAAGTAGAGGCAGGGGAAGCCCTGTCAGGGAGTGGAGGAGTGGGGGAACCCTCCTGACTTAGGGATAGGGCACGCTAAATGGGTTTAGGGGAGGGTGGAATATATCCATTCTCCCTCGCCAAGGCCAGGTCGTGGCTAAAGGAGAAGCAGGAGGCGAGGAAAGAGAACTGAGCCACGAACACCTTCCCCGCCCCCTAATCCCAG
Seq C2 exon
GGACTCGAGGAATTTGCTGCCTGCCAGTCGCACGCCTTCATGAAGGGCGTTTTCACTTTTGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026939:ENSMUST00000142087:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151101=TMEM141=PU(17.0=88.9)
A:
NA
C2:
PF151101=TMEM141=FE(23.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCAGAACCTGACCAACCATGG
R:
TGTGACAAAAGTGAAAACGCCC
Band lengths:
137-396
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