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    TATDN3 TatD DNase domain containing 3 [ Homo sapiens (human) ]

    Gene ID: 128387, updated on 10-Dec-2024

    Summary

    Official Symbol
    TATDN3provided by HGNC
    Official Full Name
    TatD DNase domain containing 3provided by HGNC
    Primary source
    HGNC:HGNC:27010
    See related
    Ensembl:ENSG00000203705 AllianceGenome:HGNC:27010
    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 metal ion binding activity and nuclease activity. Located in mitochondrion. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in brain (RPKM 5.5), fat (RPKM 5.4) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See TATDN3 in Genome Data Viewer
    Location:
    1q32.3
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (212791894..212816830)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (212036861..212061805)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (212965236..212990172)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1804 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1805 Neighboring gene basic leucine zipper ATF-like transcription factor 3 Neighboring gene NANOG hESC enhancer GRCh37_chr1:212885887-212886440 Neighboring gene MPRA-validated peak687 silencer Neighboring gene NSL1 component of MIS12 kinetochore complex Neighboring gene MPRA-validated peak688 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:212932746-212933595 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:212933596-212934444 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:212963792-212964570 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2517 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:212967459-212967959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2519 Neighboring gene RPS5 pseudogene 4 Neighboring gene spermatogenesis associated 45

    Genomic regions, transcripts, and products

    Expression

    • 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

    Interactions

    General gene information

    Clone Names

    • MGC142198

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables metal ion binding  
    enables nuclease activity  
    Component Evidence Code Pubs
    located_in mitochondrion PubMed 
    located_in nucleus  

    General protein information

    Preferred Names
    putative deoxyribonuclease TATDN3

    NCBI Reference Sequences (RefSeq)

    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_001042552.3NP_001036017.1  putative deoxyribonuclease TATDN3 isoform 1

      See identical proteins and their annotated locations for NP_001036017.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AC104333, BC113638, DB351940
      Consensus CDS
      CCDS31019.1
      UniProtKB/Swiss-Prot
      A6NGS3, B7Z1C1, B7Z978, B7ZLQ6, E9PJE5, E9PNH3, G3V151, Q17R31, Q4G0L1
      Related
      ENSP00000355941.4, ENST00000366974.9
      Conserved Domains (1) summary
      pfam01026
      Location:9265
      TatD_DNase; TatD related DNase
    2. NM_001042553.3NP_001036018.1  putative deoxyribonuclease TATDN3 isoform 2

      See identical proteins and their annotated locations for NP_001036018.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region compared to variant 1. This results in a shorter protein (isoform 2) compared to isoform 1.
      Source sequence(s)
      AC104333, BC143956, DB351940
      Consensus CDS
      CCDS41465.1
      UniProtKB/Swiss-Prot
      Q17R31
      Related
      ENSP00000355940.4, ENST00000366973.8
      Conserved Domains (1) summary
      pfam01026
      Location:9264
      TatD_DNase; TatD related DNase
    3. NM_001146169.2NP_001139641.1  putative deoxyribonuclease TATDN3 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses two alternate splice sites in the 3' coding region compared to variant 1, one of which results in a frameshift. The encoded isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC104333, BC143957, DB351940
      Consensus CDS
      CCDS53476.1
      UniProtKB/Swiss-Prot
      Q17R31
      Related
      ENSP00000433755.1, ENST00000531963.5
      Conserved Domains (1) summary
      cd01310
      Location:8233
      TatD_DNAse; TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity.
    4. NM_001146170.2NP_001139642.1  putative deoxyribonuclease TATDN3 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an in-frame exon in the 5' coding region compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AC104333, AK304557, DB351940
      Consensus CDS
      CCDS53477.1
      UniProtKB/Swiss-Prot
      Q17R31
      Related
      ENSP00000434801.1, ENST00000526641.5
      Conserved Domains (1) summary
      pfam01026
      Location:9244
      TatD_DNase; TatD related DNase
    5. NM_001146171.2NP_001139643.1  putative deoxyribonuclease TATDN3 isoform 5

      See identical proteins and their annotated locations for NP_001139643.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice site in the 3' coding region compared to variant 1. This results in a longer protein (isoform 5) compared to isoform 1.
      Source sequence(s)
      AC104333, AK293129, BC143957, DB351940
      Consensus CDS
      CCDS53475.1
      UniProtKB/Swiss-Prot
      Q17R31
      Related
      ENSP00000431376.1, ENST00000532324.5
      Conserved Domains (1) summary
      pfam01026
      Location:9272
      TatD_DNase; TatD related DNase
    6. NM_001363589.2NP_001350518.1  putative deoxyribonuclease TATDN3 isoform 6

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks an exon in the 3' coding region which causes a frameshift compared to variant 1. The encoded isoform (6) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC104333
      Conserved Domains (1) summary
      cl00281
      Location:8161
      metallo-dependent_hydrolases; Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a ...
    7. NM_001363590.2NP_001350519.1  putative deoxyribonuclease TATDN3 isoform 7

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) uses an alternate splice site and lacks an exon in the 3' coding region which causes a frameshift compared to variant 1. The encoded isoform (7) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC104333
      Consensus CDS
      CCDS86050.1
      UniProtKB/TrEMBL
      E9PP81
      Related
      ENSP00000436364.1, ENST00000526997.5
      Conserved Domains (1) summary
      cl00281
      Location:8161
      metallo-dependent_hydrolases; Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a ...

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      212791894..212816830
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017000330.3XP_016855819.1  putative deoxyribonuclease TATDN3 isoform X3

    2. XM_017000328.3XP_016855817.1  putative deoxyribonuclease TATDN3 isoform X1

    3. XM_017000329.2XP_016855818.1  putative deoxyribonuclease TATDN3 isoform X2

    4. XM_047446340.1XP_047302296.1  putative deoxyribonuclease TATDN3 isoform X5

    5. XM_024453283.2XP_024309051.1  putative deoxyribonuclease TATDN3 isoform X4

      UniProtKB/TrEMBL
      B7Z2Z9
      Conserved Domains (1) summary
      pfam01026
      Location:2212
      TatD_DNase; TatD related DNase

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      212036861..212061805
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054334463.1XP_054190438.1  putative deoxyribonuclease TATDN3 isoform X3

    2. XM_054334461.1XP_054190436.1  putative deoxyribonuclease TATDN3 isoform X1

    3. XM_054334462.1XP_054190437.1  putative deoxyribonuclease TATDN3 isoform X2

    4. XM_054334465.1XP_054190440.1  putative deoxyribonuclease TATDN3 isoform X5

    5. XM_054334464.1XP_054190439.1  putative deoxyribonuclease TATDN3 isoform X4

      UniProtKB/TrEMBL
      B7Z2Z9
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