Nudt16 nudix hydrolase 16 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nudt16provided by MGI
Official Full Name: nudix hydrolase 16provided by MGI
Primary source: MGI:MGI:1922936
See related: Ensembl:ENSMUSG00000032565 AllianceGenome:MGI:1922936
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: 2310041H06Rik; 2810047L04Rik; 2900006H04Rik
Summary: Enables dITP diphosphatase activity and nucleotide phosphatase activity, acting on free nucleotides. Involved in mRNA catabolic process. Acts upstream of or within chromosome organization and dITP catabolic process. Predicted to be located in cytoplasm; nucleolus; and nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including gonad; heart; hemolymphoid system gland; liver; and lung. Orthologous to human NUDT16 (nudix hydrolase 16). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in thymus adult (RPKM 10.1), colon adult (RPKM 9.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9; 9 F1

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (105006531..105010332, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (105129332..105133133, complement)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

binding interaction between syndesmos and syn4(cyto) was characterized as a low-affinity interaction (Kd = 62 muM) by surface plasmon resonance and nuclear magnetic resonance
Title: Crystal structure of syndesmos and its interaction with Syndecan-4 proteoglycan.
Like Dcp2, Nudt16 also regulates the stability of a subset of mRNAs including a member of the motin family of proteins involved in angiogenesis.
Title: Multiple mRNA decapping enzymes in mammalian cells.

Submit: New GeneRIF Correction

General gene information

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Markers

Nudt16 (e-PCR), detects polymorphism
- UniSTS:547461

AI851783 (e-PCR)
- UniSTS:179967

Homology

Homologs of the Nudt16 gene: The Nudt16 gene is conserved in human, chimpanzee, Rhesus monkey, rat, zebrafish, and frog.
Orthologs from Annotation Pipeline: 173 organisms have orthologs with human gene Nudt16
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity	ISO Inferred from Sequence Orthology more info
enables IDP phosphatase activity	ISO Inferred from Sequence Orthology more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables chloride ion binding	ISO Inferred from Sequence Orthology more info
enables cobalt ion binding	ISO Inferred from Sequence Orthology more info
enables dIDP phosphatase activity	IDA Inferred from Direct Assay more info	PubMed
enables dITP diphosphatase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables magnesium ion binding	ISO Inferred from Sequence Orthology more info
enables manganese ion binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables metalloexopeptidase activity	ISO Inferred from Sequence Orthology more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables phosphodiesterase decapping endonuclease activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables phosphodiesterase decapping endonuclease activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables snoRNA binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables snoRNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in NAD-cap decapping	ISO Inferred from Sequence Orthology more info
involved_in RNA phosphodiester bond hydrolysis, endonucleolytic	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromosome organization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within dITP catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in mRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nucleotide metabolic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell cycle process	ISO Inferred from Sequence Orthology more info
involved_in sno(s)RNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in sno(s)RNA catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: U8 snoRNA-decapping enzyme

Names: IDP phosphatase; IDPase; inosine diphosphate phosphatase; m7GpppN-mRNA hydrolase; nucleoside diphosphate-linked moiety X motif 16; nudix (nucleoside diphosphate linked moiety X)-type motif 16; nudix motif 16

NP_083661.2

EC 3.6.1.62

EC 3.6.1.64

XP_006511908.1

EC 3.6.1.62

EC 3.6.1.64

XP_030100551.1

EC 3.6.1.62

EC 3.6.1.64

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)

NM_029385.2 → NP_083661.2 U8 snoRNA-decapping enzyme

See identical proteins and their annotated locations for NP_083661.2

Status: VALIDATED

Source sequence(s)

AA204539, AK009737, BB027928, BC064048

Consensus CDS

CCDS40751.1

UniProtKB/Swiss-Prot

Q6P3D0, Q9D716

UniProtKB/TrEMBL

A0A8C6GZR9

Related

ENSMUSP00000035179.7, ENSMUST00000035179.9

Conserved Domains (1) summary

cd02883
Location:45 → 111

Nudix_Hydrolase; Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ ...

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

105006531..105010332 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030244691.1 → XP_030100551.1 U8 snoRNA-decapping enzyme isoform X1

Conserved Domains (1) summary

cd02883
Location:93 → 161

Nudix_Hydrolase; Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ ...
XM_006511845.5 → XP_006511908.1 U8 snoRNA-decapping enzyme isoform X2

Conserved Domains (1) summary

cd02883
Location:45 → 111

Nudix_Hydrolase; Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+ ...