U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    NT5C3B 5'-nucleotidase, cytosolic IIIB [ Homo sapiens (human) ]

    Gene ID: 115024, updated on 28-Oct-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    NT5C3Bprovided by HGNC
    Official Full Name
    5'-nucleotidase, cytosolic IIIBprovided by HGNC
    Primary source
    HGNC:HGNC:28300
    See related
    Ensembl:ENSG00000141698 MIM:620041; AllianceGenome:HGNC:28300
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CNIIIL; NT5C3L; cN-IIIB
    Summary
    Predicted to enable 5'-nucleotidase activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay. Predicted to be located in cytosol. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in testis (RPKM 21.3), thyroid (RPKM 20.8) and 25 other tissues See more
    Orthologs
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See NT5C3B in Genome Data Viewer
    Location:
    17q21.2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (41825057..41836232, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (42681614..42692788, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (39981309..39992484, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12172 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:39971057-39971558 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:39971559-39972058 Neighboring gene prolyl 3-hydroxylase family member 4 (inactive) Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:39974907-39975818 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:39975819-39976730 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:39977650-39978248 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:39978249-39978845 Neighboring gene FKBP prolyl isomerase 10 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8501 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12174 Neighboring gene kelch like family member 10 Neighboring gene kelch like family member 11 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40019607-40020116 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8503 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40021860-40022360 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40022361-40022861 Neighboring gene ATP citrate lyase Neighboring gene uncharacterized LOC124904005 Neighboring gene MPRA-validated peak2844 silencer

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: HPA RNA-seq normal tissues 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Crystal structures of the novel cytosolic 5'-nucleotidase IIIB explain its preference for m7GMP. Monecke T, et al. PLoS One, 2014. PMID 24603684, Free PMC Article
    2. Novel genes for airway wall thickness identified with combined genome-wide association and expression analyses. Dijkstra AE, et al. Am J Respir Crit Care Med, 2015 Mar 1. PMID 25517131
    3. Identification of Drosophila and human 7-methyl GMP-specific nucleotidases. Buschmann J, et al. J Biol Chem, 2013 Jan 25. PMID 23223233, Free PMC Article
    4. Cytoskeletal scaffolding proteins interact with Lynch-Syndrome associated mismatch repair protein MLH1. Brieger A, et al. Proteomics, 2010 Sep. PMID 20706999
    5. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Brandenberger R, et al. Nat Biotechnol, 2004 Jun. PMID 15146197

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. NT5C3B is involved in airway wall thickening and thereby with airway obstruction.
      Title: Novel genes for airway wall thickness identified with combined genome-wide association and expression analyses.
    Submit: New GeneRIF Correction

    Phenotypes

    Go to the top of the page Help

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC20781, MGC21375

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    NOT enables 5'-nucleotidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5'-nucleotidase activity TAS
    Traceable Author Statement
    more info
    		  
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay TAS
    Traceable Author Statement
    more info
    		  
    involved_in nucleotide metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    7-methylguanosine phosphate-specific 5'-nucleotidase
    Names
    5'-nucleotidase, cytosolic III-like
    7-methylguanosine nucleotidase
    N(7)-methylguanylate 5'-phosphatase
    cN-III-like protein
    cytosolic 5'-nucleotidase 3B
    cytosolic 5'-nucleotidase III-like protein
    NP_443167.4
    XP_011522578.1
    XP_047291254.1
    XP_054170930.1
    XP_054170931.1
    XP_054170932.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_052935.5 → NP_443167.4  7-methylguanosine phosphate-specific 5'-nucleotidase

      See identical proteins and their annotated locations for NP_443167.4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shortest transcript but encodes the functional protein.
      Source sequence(s)
      AC091172, BF339623, CN393115, DR159341, R61279
      Consensus CDS
      CCDS11410.2
      UniProtKB/Swiss-Prot
      A8MWB9, C9JKC4, Q7L3B7, Q969T7
      Related
      ENSP00000389948.2, ENST00000435506.7
      Conserved Domains (1) summary
      cd07504
      Location:17 → 289
      HAD_5NT; haloacid dehalogenase (HAD)-like 5'-nucleotidases similar to human cytosolic IIIA and IIIB

    RNA

    1. NR_033464.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in its 5' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC091172, BI914049, BX365588, R61279

    2. NR_033465.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in its 5' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC091172, BC016971, BI917511, R61279
      Related
      ENST00000523903.5

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      41825057..41836232 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011524276.3 → XP_011522578.1  7-methylguanosine phosphate-specific 5'-nucleotidase isoform X2

      UniProtKB/TrEMBL
      E5RH64
      Related
      ENSP00000429878.1, ENST00000521789.5
      Conserved Domains (1) summary
      cl21460
      Location:44 → 222
      HAD_like; Haloacid Dehalogenase-like Hydrolases

    2. XM_047435298.1 → XP_047291254.1  7-methylguanosine phosphate-specific 5'-nucleotidase isoform X1

      Related
      ENST00000469698.5

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      42681614..42692788 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054314957.1 → XP_054170932.1  7-methylguanosine phosphate-specific 5'-nucleotidase isoform X2

    2. XM_054314956.1 → XP_054170931.1  7-methylguanosine phosphate-specific 5'-nucleotidase isoform X1

    3. XM_054314955.1 → XP_054170930.1  7-methylguanosine phosphate-specific 5'-nucleotidase isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q969T7.4 GenPept UniProtKB/Swiss-Prot:Q969T7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous