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

Gene ID: 115024, updated on 11-Apr-2024

Summary

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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 exonucleolytic catabolism of deadenylated mRNA. Predicted to be located in cytosol. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 21.3), thyroid (RPKM 20.8) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
17q21.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (41825057..41836232, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (42681614..42692788, complement)
105.20220307 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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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 (12) 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

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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

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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)

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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_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_2023_10

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

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