Tet1 tet methylcytosine dioxygenase 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tet1provided by RGD
Official Full Name: tet methylcytosine dioxygenase 1provided by RGD
Primary source: RGD:1310993
See related: Ensembl:ENSRNOG00000000277 AllianceGenome:RGD:1310993
Gene type: protein coding
RefSeq status: MODEL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Cxxc6
Summary: Predicted to enable methyl-CpG binding activity; methylcytosine dioxygenase activity; and transition metal ion binding activity. Predicted to be involved in several processes, including DNA demethylation; dendrite morphogenesis; and positive regulation of macromolecule metabolic process. Predicted to act upstream of or within inner cell mass cell differentiation; regulation of DNA methylation; and regulation of genetic imprinting. Predicted to be active in nucleus. Orthologous to human TET1 (tet methylcytosine dioxygenase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 60.9), Brain (RPKM 57.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20q11

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (25766806..25839598)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (25761042..25840926)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (27359122..27438039)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Increased ten-eleven translocation methylcytosine dioxygenase one in dorsal root ganglion contributes to inflammatory pain in CFA rats.
Title: Increased ten-eleven translocation methylcytosine dioxygenase one in dorsal root ganglion contributes to inflammatory pain in CFA rats.
MicroRNA-489-3p attenuates neuropathic allodynia by regulating oncoprotein DEK/TET1-dependent epigenetic modification in the dorsal horn.
Title: MicroRNA-489-3p attenuates neuropathic allodynia by regulating oncoprotein DEK/TET1-dependent epigenetic modification in the dorsal horn.
TET1 overexpression attenuates paclitaxel-induced neuropathic pain through rescuing K2p1.1 expression in primary sensory neurons of male rats.
Title: TET1 overexpression attenuates paclitaxel-induced neuropathic pain through rescuing K(2p)1.1 expression in primary sensory neurons of male rats.
Circular RNA 0025984 Ameliorates Ischemic Stroke Injury and Protects Astrocytes Through miR-143-3p/TET1/ORP150 Pathway.
Title: Circular RNA 0025984 Ameliorates Ischemic Stroke Injury and Protects Astrocytes Through miR-143-3p/TET1/ORP150 Pathway.
The role of transcription factor Ap1 in the activation of the Nrf2/ARE pathway through TET1 in diabetic nephropathy.
Title: The role of transcription factor Ap1 in the activation of the Nrf2/ARE pathway through TET1 in diabetic nephropathy.
Oxaliplatin-induced neuropathic pain involves HOXA6 via a TET1-dependent demethylation of the SOX10 promoter.
Title: Oxaliplatin-induced neuropathic pain involves HOXA6 via a TET1-dependent demethylation of the SOX10 promoter.
Epigenetic silencing of TET1 mediated hydroxymethylation of base excision repair pathway during lung carcinogenesis.
Title: Epigenetic silencing of TET1 mediated hydroxymethylation of base excision repair pathway during lung carcinogenesis.
Dorsal root ganglia TET1 overexpression mitigated neuropathic pain likely through rescue of MOR and Kv1.2 expression in the ipsilateral DRG
Title: TET1 Overexpression Mitigates Neuropathic Pain Through Rescuing the Expression of μ-Opioid Receptor and Kv1.2 in the Primary Sensory Neurons.
DNA methylation in global genome through inhibition of Tet1 gene expression may, in part, play an important role in the neurotoxicity caused by unconjugated bilirubin.
Title: Tet1-mediated DNA demethylation involves in neuron damage induced by bilirubin in vitro.
these data suggest at CpG sites of the bdnf promoter, SNL-enhanced Tet1 expression promotes DNA demethylation both by converting 5 mC to 5 hmC and inhibiting DNMT binding to regulate spinal BDNF expression, hence contributing to behavioral allodynia development.
Title: Tet1-dependent epigenetic modification of BDNF expression in dorsal horn neurons mediates neuropathic pain in rats.

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General gene information

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Markers

AU047531 (e-PCR)
- UniSTS:110417

RH126560 (e-PCR)
- UniSTS:167007

Homology

NCBI Orthologs

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 5-methylcytosine dioxygenase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 5-methylcytosine dioxygenase activity	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables iron ion binding	ISO Inferred from Sequence Orthology more info
enables methyl-CpG binding	ISO Inferred from Sequence Orthology more info
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
acts_upstream_of_or_within DNA demethylation	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in dendrite morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epigenetic programing of male pronucleus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner cell mass cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in inner cell mass cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression via chromosomal CpG island demethylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of gene expression via chromosomal CpG island demethylation	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
involved_in protein O-linked glycosylation	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: methylcytosine dioxygenase TET1

Names: CXXC finger 6; tet oncogene 1

XP_038955252.1

EC 1.14.11.80

XP_038955253.1

EC 1.14.11.80

XP_063135732.1

EC 1.14.11.80

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086038.1 Reference GRCr8

Range

25766806..25839598

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039099324.2 → XP_038955252.1 methylcytosine dioxygenase TET1 isoform X1

UniProtKB/TrEMBL

F1LUQ3

Related

ENSRNOP00000000302.7

Conserved Domains (3) summary

pfam02008
Location:565 → 604

zf-CXXC; CXXC zinc finger domain

cl40427
Location:1368 → 1995

Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins

NF038014
Location:1051 → 1128

Chlamy_inclu_1; inclusion-associated protein
XM_063279662.1 → XP_063135732.1 methylcytosine dioxygenase TET1 isoform X2
XM_039099325.2 → XP_038955253.1 methylcytosine dioxygenase TET1 isoform X2

Conserved Domains (2) summary

cl40427
Location:717 → 1344

Tet_JBP; oxygenase domain of ten-eleven translocation (TET) enzymes, J-binding proteins (JBPs), and similar proteins

NF038014
Location:400 → 477

Chlamy_inclu_1; inclusion-associated protein

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107643.1: Suppressed sequence

Description

NM_001107643.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: TET1 (GeneID:80312).