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TET1 tet methylcytosine dioxygenase 1 [ Homo sapiens (human) ]

Gene ID: 80312, updated on 17-Jun-2024

Summary

Official Symbol
TET1provided by HGNC
Official Full Name
tet methylcytosine dioxygenase 1provided by HGNC
Primary source
HGNC:HGNC:29484
See related
Ensembl:ENSG00000138336 MIM:607790; AllianceGenome:HGNC:29484
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LCX; CXXC6; bA119F7.1
Summary
DNA methylation is an epigenetic mechanism that is important for controlling gene expression. The protein encoded by this gene is a demethylase that belongs to the TET (ten-eleven translocation) family. Members of the TET protein family play a role in the DNA methylation process and gene activation. [provided by RefSeq, Sep 2015]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

See TET1 in Genome Data Viewer
Location:
10q21.3
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (68560337..68694487)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (69429559..69563685)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (70320094..70454244)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene solute carrier family 25 member 16 Neighboring gene ribosomal protein L26 pseudogene 27 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:70285872-70286556 Neighboring gene Sharpr-MPRA regulatory region 5966 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:70287929-70288614 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:70311125-70311694 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:70319811-70320333 Neighboring gene transmembrane protein 14D, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:70327554-70328054 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:70328055-70328555 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:70358633-70359198 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3465 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3466 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:70368833-70369512 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:70376644-70377144 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:70377145-70377645 Neighboring gene MPRA-validated peak999 silencer Neighboring gene COX20 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3468 Neighboring gene RPS3A pseudogene 37 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_16818 Neighboring gene uncharacterized LOC124902592 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_16833 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2421 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_16857 Neighboring gene cell division cycle and apoptosis regulator 1 Neighboring gene small nucleolar RNA, C/D box 98

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ10839, FLJ41442, KIAA1676

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 5-methylcytosine dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables 5-methylcytosine dioxygenase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables 5-methylcytosine dioxygenase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables iron ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables methyl-CpG binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding IDA
Inferred from Direct Assay
more info
PubMed 
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
 
involved_in cellular response to reactive oxygen species IDA
Inferred from Direct Assay
more info
PubMed 
involved_in chromatin remodeling IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in dendrite morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in epigenetic programing of male pronucleus IEA
Inferred from Electronic Annotation
more info
 
involved_in inner cell mass cell differentiation ISS
Inferred from Sequence or Structural Similarity
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 positive regulation of gene expression via chromosomal CpG island demethylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of gene expression via chromosomal CpG island demethylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
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
 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein O-linked glycosylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in stem cell population maintenance ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
part_of Sin3-type complex NAS
Non-traceable Author Statement
more info
PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IC
Inferred by Curator
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 zinc finger 6
CXXC-type zinc finger protein 6
leukemia-associated protein with a CXXC domain
ten-eleven translocation 1 gene protein
ten-eleven translocation-1
tet oncogene 1
NP_001393294.1
NP_001393296.1
NP_001393297.1
NP_001393298.1
NP_001393299.1
NP_001393300.1
NP_001393301.1
NP_001393302.1
NP_001393303.1
NP_001393304.1
NP_001393305.1
NP_085128.2
XP_011538508.1
XP_016872175.1
XP_016872176.1
XP_016872177.1
XP_054222780.1
XP_054222781.1
XP_054222782.1

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_001406365.1NP_001393294.1  methylcytosine dioxygenase TET1 isoform 1

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  2. NM_001406367.1NP_001393296.1  methylcytosine dioxygenase TET1 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  3. NM_001406368.1NP_001393297.1  methylcytosine dioxygenase TET1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  4. NM_001406369.1NP_001393298.1  methylcytosine dioxygenase TET1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  5. NM_001406370.1NP_001393299.1  methylcytosine dioxygenase TET1 isoform 4

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  6. NM_001406371.1NP_001393300.1  methylcytosine dioxygenase TET1 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  7. NM_001406372.1NP_001393301.1  methylcytosine dioxygenase TET1 isoform 5

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  8. NM_001406373.1NP_001393302.1  methylcytosine dioxygenase TET1 isoform 6

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  9. NM_001406374.1NP_001393303.1  methylcytosine dioxygenase TET1 isoform 7

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  10. NM_001406375.1NP_001393304.1  methylcytosine dioxygenase TET1 isoform 8

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  11. NM_001406376.1NP_001393305.1  methylcytosine dioxygenase TET1 isoform 9

    Status: REVIEWED

    Source sequence(s)
    AL513534, AL713888
  12. NM_030625.3NP_085128.2  methylcytosine dioxygenase TET1 isoform 2

    See identical proteins and their annotated locations for NP_085128.2

    Status: REVIEWED

    Source sequence(s)
    AF430147, AK123436, AL513534, AL713888, AL832334
    Consensus CDS
    CCDS7281.1
    UniProtKB/Swiss-Prot
    A0A023HHK9, A0A023HHL0, Q5VUP7, Q7Z6B6, Q8NFU7, Q8TCR1, Q9C0I7
    Related
    ENSP00000362748.4, ENST00000373644.5
    Conserved Domains (3) summary
    pfam02008
    Location:585624
    zf-CXXC; CXXC zinc finger domain
    pfam12851
    Location:15801707
    Tet_JBP; Oxygenase domain of the 2OGFeDO superfamily
    cl05674
    Location:10351057
    PET; PET ((Prickle Espinas Testin) domain is involved in protein-protein interactions

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    68560337..68694487
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011540206.3XP_011538508.1  methylcytosine dioxygenase TET1 isoform X3

    Conserved Domains (2) summary
    pfam02008
    Location:585624
    zf-CXXC; CXXC zinc finger domain
    cl05674
    Location:10351057
    PET; PET ((Prickle Espinas Testin) domain is involved in protein-protein interactions
  2. XM_017016688.2XP_016872177.1  methylcytosine dioxygenase TET1 isoform X2

  3. XM_017016687.2XP_016872176.1  methylcytosine dioxygenase TET1 isoform X2

  4. XM_017016686.3XP_016872175.1  methylcytosine dioxygenase TET1 isoform X1

RNA

  1. XR_001747211.2 RNA Sequence

  2. XR_001747212.2 RNA Sequence

  3. XR_001747210.2 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    69429559..69563685
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054366807.1XP_054222782.1  methylcytosine dioxygenase TET1 isoform X3

  2. XM_054366806.1XP_054222781.1  methylcytosine dioxygenase TET1 isoform X2

  3. XM_054366805.1XP_054222780.1  methylcytosine dioxygenase TET1 isoform X1

RNA

  1. XR_008488269.1 RNA Sequence

  2. XR_008488270.1 RNA Sequence

  3. XR_008488268.1 RNA Sequence