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

Gene ID: 52463, updated on 8-Dec-2022

Summary

Official Symbol
Tet1provided by MGI
Official Full Name
tet methylcytosine dioxygenase 1provided by MGI
Primary source
MGI:MGI:1098693
See related
Ensembl:ENSMUSG00000047146 AllianceGenome:MGI:1098693
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; mKIAA1676; D10Ertd17e; 2510010B09Rik
Summary
Enables methylcytosine dioxygenase activity. Involved in several processes, including dendrite morphogenesis; inner cell mass cell differentiation; and protein O-linked glycosylation. Acts upstream of or within DNA demethylation; regulation of DNA methylation; and regulation of genetic imprinting. Located in nucleus. Is expressed in several structures, including brain; early conceptus; embryo ectoderm; lower urogenital tract; and reproductive system. Orthologous to human TET1 (tet methylcytosine dioxygenase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E18 (RPKM 2.2), whole brain E14.5 (RPKM 2.0) and 18 other tissues See more
Orthologs
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Genomic context

See Tet1 in Genome Data Viewer
Location:
10 B4; 10 32.48 cM
Exon count:
14
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (62640349..62723242, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (62804570..62887469, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene storkhead box 1 Neighboring gene NHP2 ribonucleoprotein pseudogene Neighboring gene cell division cycle and apoptosis regulator 1 Neighboring gene small nucleolar RNA, C/D box 98 Neighboring gene predicted gene, 51805 Neighboring gene CRISPRi-validated Tet1 enhancer cluster Neighboring gene predicted gene, 26479 Neighboring gene solute carrier family 25 (mitochondrial carrier, Graves disease autoantigen), member 16 Neighboring gene predicted gene, 25862

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 Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
 
enables iron ion binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables methyl-CpG binding ISO
Inferred from Sequence Orthology
more info
 
enables methylcytosine dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables methylcytosine dioxygenase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables methylcytosine dioxygenase activity ISO
Inferred from Sequence Orthology
more info
 
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in 5-methylcytosine catabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA demethylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within DNA demethylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in DNA demethylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in DNA demethylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in dendrite morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within inner cell mass cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in inner cell mass cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of DNA methylation-dependent heterochromatin formation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cell migration NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of transforming growth factor beta receptor signaling pathway NAS
Non-traceable Author Statement
more info
PubMed 
involved_in oxidative demethylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein O-linked glycosylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of genetic imprinting IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of Sin3 complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus NAS
Non-traceable Author Statement
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_017169516.1
XP_030101034.1
XP_030101035.1

NCBI Reference Sequences (RefSeq)

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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

    Source sequence(s)
    AC166359
    Consensus CDS
    CCDS56706.1
    UniProtKB/TrEMBL
    E9Q9Y4
    Related
    ENSMUSP00000133279.2, ENSMUST00000174189.2
    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. NM_001406381.1NP_001393310.1  methylcytosine dioxygenase TET1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC166359
  3. NM_001406382.1NP_001393311.1  methylcytosine dioxygenase TET1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC166359
  4. NM_001406383.1NP_001393312.1  methylcytosine dioxygenase TET1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC166359

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    62640349..62723242 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006513867.5XP_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
    cl40427
    Location:13711993
    Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins
  2. XM_030245175.2XP_030101035.1  methylcytosine dioxygenase TET1 isoform X3

    Conserved Domains (1) summary
    cl40427
    Location:7171321
    Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins
  3. XM_030245174.2XP_030101034.1  methylcytosine dioxygenase TET1 isoform X2

    Conserved Domains (1) summary
    cl40427
    Location:7171339
    Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins
  4. XM_017314027.3XP_017169516.1  methylcytosine dioxygenase TET1 isoform X2

    Conserved Domains (1) summary
    cl40427
    Location:7171339
    Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins

RNA

  1. XR_003948738.2 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.