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Smg6 Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans) [ Mus musculus (house mouse) ]

Gene ID: 103677, updated on 10-Oct-2019

Summary

Official Symbol
Smg6provided by MGI
Official Full Name
Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)provided by MGI
Primary source
MGI:MGI:2144117
See related
Ensembl:ENSMUSG00000038290
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
AI317223; AU041178
Expression
Ubiquitous expression in testis adult (RPKM 16.7), thymus adult (RPKM 12.4) and 28 other tissues See more
Orthologs

Genomic context

See Smg6 in Genome Data Viewer
Location:
11; 11 B5
Exon count:
21
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (74925854..75164448)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (74739374..74977950)

Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene small G protein signaling modulator 2 Neighboring gene microRNA 6926 Neighboring gene small nucleolar RNA, C/D box 91A Neighboring gene TSR1 20S rRNA accumulation Neighboring gene U6 spliceosomal RNA Neighboring gene serine racemase Neighboring gene 40S ribosomal protein S12 pseudogene Neighboring gene SMT3 suppressor of mif two 3 homolog 2 pseudogene Neighboring gene uncharacterized LOC115487788 Neighboring gene microRNA 212 Neighboring gene microRNA 132 Neighboring gene hypermethylated in cancer 1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Transgenic (1) 
  • Gene trapped (1) 
  • Targeted (2)  1 citation
  • Endonuclease-mediated (1) 

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC7717

Gene Ontology Provided by MGI

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA polymerase binding ISO
Inferred from Sequence Orthology
more info
 
RNA binding ISO
Inferred from Sequence Orthology
more info
 
endonuclease activity IEA
Inferred from Electronic Annotation
more info
 
endoribonuclease activity ISO
Inferred from Sequence Orthology
more info
 
hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
nuclease activity IEA
Inferred from Electronic Annotation
more info
 
ribonucleoprotein complex binding ISO
Inferred from Sequence Orthology
more info
 
telomerase RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
telomerase RNA binding ISO
Inferred from Sequence Orthology
more info
 
telomeric DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
negative regulation of telomere capping ISO
Inferred from Sequence Orthology
more info
 
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
Inferred from Sequence Orthology
more info
 
regulation of telomere maintenance ISO
Inferred from Sequence Orthology
more info
 
regulation of telomere maintenance via telomerase IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
telomere maintenance via telomerase IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
chromosome IEA
Inferred from Electronic Annotation
more info
 
chromosome, telomeric region IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
colocalizes_with exon-exon junction complex ISO
Inferred from Sequence Orthology
more info
 
nucleolus ISO
Inferred from Sequence Orthology
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
telomerase holoenzyme complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
telomerase-binding protein EST1A
Names
EST1-like protein A
ever shorter telomeres 1A
telomerase subunit EST1A
NP_001002764.1
XP_011246961.1
XP_011246962.1
XP_030101310.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001002764.2NP_001002764.1  telomerase-binding protein EST1A

    See identical proteins and their annotated locations for NP_001002764.1

    Status: VALIDATED

    Source sequence(s)
    BC066040, BY109058
    Consensus CDS
    CCDS25039.1
    UniProtKB/Swiss-Prot
    P61406
    Related
    ENSMUSP00000043555.6, ENSMUST00000045281.12
    Conserved Domains (4) summary
    cd09885
    Location:12401415
    PIN_Smg6; PIN domain of human telomerase-binding protein EST1, Smg6, and other similar eukaryotic homologs
    pfam10373
    Location:7501102
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:637740
    EST1; Telomerase activating protein Est1
    pfam12868
    Location:479552
    DUF3824; Domain of unknwon function (DUF3824)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 108 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000077.6 Reference GRCm38.p6 C57BL/6J

    Range
    74925854..75164448
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011248660.2XP_011246962.1  telomerase-binding protein EST1A isoform X2

    Conserved Domains (2) summary
    cd09885
    Location:333508
    PIN_Smg6; PIN domain of human telomerase-binding protein EST1, Smg6, and other similar eukaryotic homologs
    pfam10373
    Location:1195
    EST1_DNA_bind; Est1 DNA/RNA binding domain
  2. XM_011248659.3XP_011246961.1  telomerase-binding protein EST1A isoform X1

    Conserved Domains (5) summary
    cd09885
    Location:12271402
    PIN_Smg6; PIN domain of human telomerase-binding protein EST1, Smg6, and other similar eukaryotic homologs
    sd00006
    Location:751781
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:7371089
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:624727
    EST1; Telomerase activating protein Est1
    pfam12868
    Location:466539
    DUF3824; Domain of unknwon function (DUF3824)
  3. XM_030245450.1XP_030101310.1  telomerase-binding protein EST1A isoform X2

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