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Tet1 tet methylcytosine dioxygenase 1 [ Mus musculus (house mouse) ]

Gene ID: 52463, updated on 15-Apr-2019

Summary

Official Symbol
Tet1provided by MGI
Official Full Name
tet methylcytosine dioxygenase 1provided by MGI
Primary source
MGI:MGI:1098693
See related
Ensembl:ENSMUSG00000047146
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
LCX; Cxxc6; AA517754; BB001228; mKIAA1676; D10Ertd17e; 2510010B09Rik
Expression
Broad expression in CNS E18 (RPKM 2.2), whole brain E14.5 (RPKM 2.0) and 18 other tissues See more
Orthologs

Genomic context

See Tet1 in Genome Data Viewer
Location:
10 B4; 10 32.48 cM
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 10 NC_000076.6 (62804570..62887581, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (62267318..62342762, complement)

Chromosome 10 - NC_000076.6Genomic Context describing neighboring genes Neighboring gene storkhead box 1 Neighboring gene microRNA 7215 Neighboring gene cell division cycle and apoptosis regulator 1 Neighboring gene small nucleolar RNA, C/D box 98 Neighboring gene solute carrier family 25 (mitochondrial carrier, Graves disease autoantigen), member 16 Neighboring gene ribosomal protein 10 pseudogene Neighboring gene DNA replication helicase/nuclease 2

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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
DNA binding ISO
Inferred from Sequence Orthology
more info
 
dioxygenase activity IEA
Inferred from Electronic Annotation
more info
 
iron ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
iron ion binding ISO
Inferred from Sequence Orthology
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
methylcytosine dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
methylcytosine dioxygenase activity IDA
Inferred from Direct Assay
more info
PubMed 
methylcytosine dioxygenase activity ISO
Inferred from Sequence Orthology
more info
 
oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
5-methylcytosine catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA demethylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA demethylation IDA
Inferred from Direct Assay
more info
PubMed 
DNA demethylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
DNA demethylation ISO
Inferred from Sequence Orthology
more info
 
chromatin organization IEA
Inferred from Electronic Annotation
more info
 
inner cell mass cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of methylation-dependent chromatin silencing ISO
Inferred from Sequence Orthology
more info
 
oxidation-reduction process IEA
Inferred from Electronic Annotation
more info
 
oxidative demethylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cell proliferation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of histone methylation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein O-linked glycosylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of genetic imprinting IMP
Inferred from Mutant Phenotype
more info
PubMed 
stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
methylcytosine dioxygenase TET1
Names
CXXC finger 6
CXXC-type zinc finger protein 6
ten-eleven translocation 1 gene protein homolog
tet oncogene 1
NP_001240786.1
XP_006513930.1
XP_006513932.1
XP_011241810.1
XP_011241811.1
XP_017169516.1

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_001253857.2NP_001240786.1  methylcytosine dioxygenase TET1 isoform 1

    See identical proteins and their annotated locations for NP_001240786.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC166359
    Consensus CDS
    CCDS56706.1
    UniProtKB/TrEMBL
    E9Q9Y4
    Related
    ENSMUSP00000133279.1, ENSMUST00000174189.1
    Conserved Domains (2) summary
    pfam02008
    Location:568607
    zf-CXXC; CXXC zinc finger domain
    pfam12851
    Location:15281686
    Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000076.6 Reference GRCm38.p4 C57BL/6J

    Range
    62804570..62887581 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006513867.3XP_006513930.1  methylcytosine dioxygenase TET1 isoform X1

    See identical proteins and their annotated locations for XP_006513930.1

    Conserved Domains (2) summary
    pfam02008
    Location:568607
    zf-CXXC; CXXC zinc finger domain
    pfam12851
    Location:15281686
    Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily
  2. XM_011243509.2XP_011241811.1  methylcytosine dioxygenase TET1 isoform X2

    UniProtKB/TrEMBL
    E9Q9Y4
    Conserved Domains (2) summary
    pfam02008
    Location:568607
    zf-CXXC; CXXC zinc finger domain
    pfam12851
    Location:15281686
    Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily
  3. XM_006513869.3XP_006513932.1  methylcytosine dioxygenase TET1 isoform X1

    See identical proteins and their annotated locations for XP_006513932.1

    Conserved Domains (2) summary
    pfam02008
    Location:568607
    zf-CXXC; CXXC zinc finger domain
    pfam12851
    Location:15281686
    Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily
  4. XM_011243508.2XP_011241810.1  methylcytosine dioxygenase TET1 isoform X1

    See identical proteins and their annotated locations for XP_011241810.1

    Conserved Domains (2) summary
    pfam02008
    Location:568607
    zf-CXXC; CXXC zinc finger domain
    pfam12851
    Location:15281686
    Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily
  5. XM_017314027.1XP_017169516.1  methylcytosine dioxygenase TET1 isoform X3

RNA

  1. XR_871717.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_027384.1: Suppressed sequence

    Description
    NM_027384.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
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