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

    Gene ID: 284958, updated on 10-Dec-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. [provided by Alliance of Genome Resources, Dec 2024]
    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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    See NT5DC4 in Genome Data Viewer
    Location:
    2q14.1
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (112718876..112742879)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (113145462..113169534)
    RS_2024_09 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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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)

    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_2024_08

    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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