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NT5DC4 5'-nucleotidase domain containing 4 [ Homo sapiens (human) ]

Gene ID: 284958, updated on 5-Mar-2024

Summary

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Official Symbol
NT5DC4provided by HGNC
Official Full Name
5'-nucleotidase domain containing 4provided by HGNC
Primary source
HGNC:HGNC:27678
See related
Ensembl:ENSG00000144130 AllianceGenome:HGNC:27678
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
Summary
Predicted to enable 5'-nucleotidase activity. Predicted to be involved in dephosphorylation. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis (RPKM 1.0), lymph node (RPKM 0.3) and 3 other tissues See more
Orthologs
all
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Genomic context

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Location:
2q14.1
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (112718876..112742879)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (113145462..113169534)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (113478597..113500456)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11875 Neighboring gene Sharpr-MPRA regulatory region 7980 Neighboring gene solute carrier family 20 member 1 Neighboring gene uncharacterized LOC102724955 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:113448691-113448877 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:113449610-113450809 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:113451927-113452426 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16397 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:113483672-113484391 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:113484392-113485110 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16398 Neighboring gene cytoskeleton associated protein 2 like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16399 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11876 Neighboring gene Sharpr-MPRA regulatory region 10892 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16400 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16401 Neighboring gene interleukin 1 alpha Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:113551633-113552832 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16402 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16403 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:113563077-113563577 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:113569190-113570389 Neighboring gene uncharacterized LOC124907871 Neighboring gene Sharpr-MPRA regulatory region 10273

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. The involvement of Parkin-dependent mitophagy in the anti-cancer activity of Ginsenoside. Sun X, et al. J Ginseng Res, 2022 Mar. PMID 35509820, Free PMC Article
  2. Dynamics of cullin-RING ubiquitin ligase network revealed by systematic quantitative proteomics. Bennett EJ, et al. Cell, 2010 Dec 10. PMID 21145461, Free PMC Article
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 5'-nucleotidase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
5'-nucleotidase domain-containing protein 4

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_001350494.2 → NP_001337423.1  5'-nucleotidase domain-containing protein 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC079922, BC041437
    Consensus CDS
    CCDS86877.1
    UniProtKB/Swiss-Prot
    A0A8I5KS70, Q86YG4
    Related
    ENSP00000330247.4, ENST00000327581.4
    Conserved Domains (1) summary
    pfam05761
    Location:13 → 390
    5_nucleotid; 5' nucleotidase family

  2. NM_001393655.1 → NP_001380584.1  5'-nucleotidase domain-containing protein 4 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC079922
    Consensus CDS
    CCDS92846.1
    Related
    ENSP00000509504.1, ENST00000688554.1
    Conserved Domains (1) summary
    cd07522
    Location:27 → 373
    HAD_cN-II; cytosolic 5'-nucleotidase II (cN-II) similar to human NT5DC1 (5'-nucleotidase domain-containing protein 1) and NT5DC2

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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    112718876..112742879
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017005477.2 → XP_016860966.1  5'-nucleotidase domain-containing protein 4 isoform X13

  2. XM_017005476.2 → XP_016860965.1  5'-nucleotidase domain-containing protein 4 isoform X12

    UniProtKB/TrEMBL
    A0A8I5KQQ4
    Related
    ENSP00000508583.1, ENST00000690591.1

  3. XM_017005478.2 → XP_016860967.1  5'-nucleotidase domain-containing protein 4 isoform X15

    UniProtKB/TrEMBL
    A0A8I5KQP2
    Related
    ENSP00000509747.1, ENST00000689550.1

  4. XM_024452802.2 → XP_024308570.1  5'-nucleotidase domain-containing protein 4 isoform X5

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 491
    5_nucleotid; 5' nucleotidase family

  5. XM_017005475.1 → XP_016860964.1  5'-nucleotidase domain-containing protein 4 isoform X9

  6. XM_024452799.2 → XP_024308567.1  5'-nucleotidase domain-containing protein 4 isoform X1

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 491
    5_nucleotid; 5' nucleotidase family

  7. XM_024452807.2 → XP_024308575.1  5'-nucleotidase domain-containing protein 4 isoform X11

    Conserved Domains (1) summary
    cl17687
    Location:103 → 434
    5_nucleotid; 5' nucleotidase family

  8. XM_024452800.2 → XP_024308568.1  5'-nucleotidase domain-containing protein 4 isoform X3

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 485
    5_nucleotid; 5' nucleotidase family

  9. XM_024452803.2 → XP_024308571.1  5'-nucleotidase domain-containing protein 4 isoform X6

    Conserved Domains (1) summary
    cl17687
    Location:103 → 449
    5_nucleotid; 5' nucleotidase family

  10. XM_024452808.2 → XP_024308576.1  5'-nucleotidase domain-containing protein 4 isoform X14

    Conserved Domains (1) summary
    cl17687
    Location:103 → 392
    5_nucleotid; 5' nucleotidase family

  11. XM_011512262.3 → XP_011510564.1  5'-nucleotidase domain-containing protein 4 isoform X2

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 486
    5_nucleotid; 5' nucleotidase family

  12. XM_017005474.2 → XP_016860963.1  5'-nucleotidase domain-containing protein 4 isoform X4

    Conserved Domains (1) summary
    cd07522
    Location:96 → 431
    HAD_cN-II; cytosolic 5'-nucleotidase II (cN-II) similar to human NT5DC1 (5'-nucleotidase domain-containing protein 1) and NT5DC2

  13. XM_024452804.2 → XP_024308572.1  5'-nucleotidase domain-containing protein 4 isoform X7

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 491
    5_nucleotid; 5' nucleotidase family

  14. XM_024452805.2 → XP_024308573.1  5'-nucleotidase domain-containing protein 4 isoform X8

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 491
    5_nucleotid; 5' nucleotidase family

  15. XM_024452806.2 → XP_024308574.1  5'-nucleotidase domain-containing protein 4 isoform X10

    Conserved Domains (1) summary
    pfam05761
    Location:103 → 491
    5_nucleotid; 5' nucleotidase family

  16. XM_047443973.1 → XP_047299929.1  5'-nucleotidase domain-containing protein 4 isoform X16

  17. XM_047443974.1 → XP_047299930.1  5'-nucleotidase domain-containing protein 4 isoform X20

  18. XM_024452809.1 → XP_024308577.1  5'-nucleotidase domain-containing protein 4 isoform X18

    Conserved Domains (1) summary
    cl17687
    Location:103 → 333
    5_nucleotid; 5' nucleotidase family

  19. XM_024452810.1 → XP_024308578.1  5'-nucleotidase domain-containing protein 4 isoform X19

    Conserved Domains (1) summary
    cl17687
    Location:103 → 328
    5_nucleotid; 5' nucleotidase family

  20. XM_011512265.3 → XP_011510567.1  5'-nucleotidase domain-containing protein 4 isoform X17

    Conserved Domains (1) summary
    cl17687
    Location:15 → 279
    5_nucleotid; 5' nucleotidase family

RNA

  1. XR_002959269.2 RNA Sequence

  2. XR_002959270.1 RNA Sequence

  3. XR_002959268.2 RNA Sequence

  4. XR_002959267.2 RNA Sequence

  5. XR_001739644.2 RNA Sequence

  6. XR_002959275.1 RNA Sequence

  7. XR_002959274.1 RNA Sequence

  8. XR_002959272.1 RNA Sequence

  9. XR_002959273.1 RNA Sequence

  10. XR_002959276.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    113145462..113169534
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054341459.1 → XP_054197434.1  5'-nucleotidase domain-containing protein 4 isoform X13

  2. XM_054341458.1 → XP_054197433.1  5'-nucleotidase domain-containing protein 4 isoform X12

  3. XM_054341461.1 → XP_054197436.1  5'-nucleotidase domain-containing protein 4 isoform X15

  4. XM_054341451.1 → XP_054197426.1  5'-nucleotidase domain-containing protein 4 isoform X5

  5. XM_054341455.1 → XP_054197430.1  5'-nucleotidase domain-containing protein 4 isoform X9

  6. XM_054341446.1 → XP_054197421.1  5'-nucleotidase domain-containing protein 4 isoform X1

  7. XM_054341457.1 → XP_054197432.1  5'-nucleotidase domain-containing protein 4 isoform X11

  8. XM_054341448.1 → XP_054197423.1  5'-nucleotidase domain-containing protein 4 isoform X3

  9. XM_054341452.1 → XP_054197427.1  5'-nucleotidase domain-containing protein 4 isoform X6

  10. XM_054341460.1 → XP_054197435.1  5'-nucleotidase domain-containing protein 4 isoform X14

  11. XM_054341447.1 → XP_054197422.1  5'-nucleotidase domain-containing protein 4 isoform X2

  12. XM_054341449.1 → XP_054197424.1  5'-nucleotidase domain-containing protein 4 isoform X4

  13. XM_054341453.1 → XP_054197428.1  5'-nucleotidase domain-containing protein 4 isoform X7

  14. XM_054341454.1 → XP_054197429.1  5'-nucleotidase domain-containing protein 4 isoform X8

  15. XM_054341456.1 → XP_054197431.1  5'-nucleotidase domain-containing protein 4 isoform X10

  16. XM_054341450.1 → XP_054197425.1  5'-nucleotidase domain-containing protein 4 isoform X21

  17. XM_054341462.1 → XP_054197437.1  5'-nucleotidase domain-containing protein 4 isoform X16

  18. XM_054341466.1 → XP_054197441.1  5'-nucleotidase domain-containing protein 4 isoform X20

  19. XM_054341464.1 → XP_054197439.1  5'-nucleotidase domain-containing protein 4 isoform X18

  20. XM_054341465.1 → XP_054197440.1  5'-nucleotidase domain-containing protein 4 isoform X19

  21. XM_054341463.1 → XP_054197438.1  5'-nucleotidase domain-containing protein 4 isoform X17

RNA

  1. XR_008486328.1 RNA Sequence

  2. XR_008486327.1 RNA Sequence

  3. XR_008486325.1 RNA Sequence

  4. XR_008486326.1 RNA Sequence

  5. XR_008486329.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86YG4.3 GenPept UniProtKB/Swiss-Prot:Q86YG4

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