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    ZMYM5 zinc finger MYM-type containing 5 [ Homo sapiens (human) ]

    Gene ID: 9205, updated on 5-Mar-2024

    Summary

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    Official Symbol
    ZMYM5provided by HGNC
    Official Full Name
    zinc finger MYM-type containing 5provided by HGNC
    Primary source
    HGNC:HGNC:13029
    See related
    Ensembl:ENSG00000132950 MIM:616443; AllianceGenome:HGNC:13029
    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
    MYM; ZNF237; HSPC050; ZNF198L1
    Summary
    Predicted to enable zinc ion binding activity. Involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis (RPKM 10.0), gall bladder (RPKM 4.8) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZMYM5 in Genome Data Viewer
    Location:
    13q12.11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (19823482..19863649, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (19019698..19059861, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (20397622..20437789, complement)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene paraspeckle component 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:20316454-20317223 Neighboring gene RNA, 7SL, cytoplasmic 166, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:20340248-20340748 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:20343088-20343647 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7409 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:20392071-20392598 Neighboring gene ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7410 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5140 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:20437895-20438623 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7413 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7412 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5142 Neighboring gene small nucleolar RNA U13 Neighboring gene zinc finger MYM-type containing 2 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:20531546-20532088 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:20532089-20532630 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5145 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5146 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:20533613-20534383 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5147 Neighboring gene KRR1 pseudogene 1

    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. Cloning of ZNF237, a novel member of the MYM gene family that maps to human chromosome 13q11-->q12. Sohal J, et al. Cytogenet Cell Genet, 2000. PMID 10894931
    2. Transcriptional regulation of the presenilin-1 gene controls gamma-secretase activity. Lee S, et al. Front Biosci (Elite Ed), 2010 Jan 1. PMID 20036849
    3. Analysis of transcriptional modulation of the presenilin 1 gene promoter by ZNF237, a candidate binding partner of the Ets transcription factor ERM. Pastorcic M, et al. Brain Res, 2007 Jan 12. PMID 17126306, Free PMC Article
    4. Specification of SUMO1- and SUMO2-interacting motifs. Hecker CM, et al. J Biol Chem, 2006 Jun 9. PMID 16524884
    5. Linking functions: an additional role for an intrinsically disordered linker domain in the transcriptional coactivator CBP. Contreras-Martos S, et al. Sci Rep, 2017 Jul 5. PMID 28680062, Free PMC Article

    See all (24) citations in PubMed

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger MYM-type protein 5
    Names
    zinc finger protein 198-like 1
    zinc finger protein 237
    zinc finger, MYM-type 5

    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_001039649.3 → NP_001034738.1  zinc finger MYM-type protein 5 isoform 2

      See identical proteins and their annotated locations for NP_001034738.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR and has multiple differences in the 3' coding region, compared to variant 3. These differences result in a protein (isoform 2) with a shorter and distinct C-terminus, compared to isoform 3.
      Source sequence(s)
      AJ133353, AL355001, BC007048
      Consensus CDS
      CCDS31943.1
      UniProtKB/Swiss-Prot
      Q9UJ78
      Related
      ENSP00000372364.4, ENST00000382907.8

    2. NM_001039650.3 → NP_001034739.1  zinc finger MYM-type protein 5 isoform 1

      See identical proteins and their annotated locations for NP_001034739.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 3' UTR and has multiple differences in the 3' coding region, compared to variant 3. These differences result in a protein (isoform 1) with a shorter and distinct C-terminus, compared to isoform 3.
      Source sequence(s)
      AJ133352, AL355001, BC007048
      Consensus CDS
      CCDS31942.1
      UniProtKB/Swiss-Prot
      Q9UJ78
      Related
      ENSP00000372361.4, ENST00000382905.8
      Conserved Domains (1) summary
      pfam06467
      Location:241 → 276
      zf-FCS; MYM-type Zinc finger with FCS sequence motif

    3. NM_001142684.2 → NP_001136156.1  zinc finger MYM-type protein 5 isoform 3

      See identical proteins and their annotated locations for NP_001136156.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (3). There are no full-length transcripts representing the exon combination of this variant in human; it is predicted based on partial transcript alignments, on alignment of the macaque mRNA AB179330.1, and on homology support for the encoded protein.
      Source sequence(s)
      AJ133352, AL354808, AL355001, BU853478
      UniProtKB/Swiss-Prot
      B2R6V1, Q5T6E1, Q5T6E2, Q5T6E4, Q96IY6, Q9NZY5, Q9UBW0, Q9UJ77, Q9UJ78
      Related
      ENSP00000337034.4, ENST00000337963.9
      Conserved Domains (2) summary
      smart00597
      Location:563 → 638
      ZnF_TTF; zinc finger in transposases and transcription factors
      pfam06467
      Location:372 → 415
      zf-FCS; MYM-type Zinc finger with FCS sequence motif

    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_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      19823482..19863649 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047430769.1 → XP_047286725.1  zinc finger MYM-type protein 5 isoform X4

    2. XM_005266594.4 → XP_005266651.1  zinc finger MYM-type protein 5 isoform X2

      See identical proteins and their annotated locations for XP_005266651.1

      UniProtKB/Swiss-Prot
      B2R6V1, Q5T6E1, Q5T6E2, Q5T6E4, Q96IY6, Q9NZY5, Q9UBW0, Q9UJ77, Q9UJ78
      Conserved Domains (2) summary
      smart00597
      Location:563 → 638
      ZnF_TTF; zinc finger in transposases and transcription factors
      pfam06467
      Location:372 → 415
      zf-FCS; MYM-type Zinc finger with FCS sequence motif

    3. XM_047430768.1 → XP_047286724.1  zinc finger MYM-type protein 5 isoform X4

    4. XM_006719894.4 → XP_006719957.1  zinc finger MYM-type protein 5 isoform X2

      See identical proteins and their annotated locations for XP_006719957.1

      UniProtKB/Swiss-Prot
      B2R6V1, Q5T6E1, Q5T6E2, Q5T6E4, Q96IY6, Q9NZY5, Q9UBW0, Q9UJ77, Q9UJ78
      Conserved Domains (2) summary
      smart00597
      Location:563 → 638
      ZnF_TTF; zinc finger in transposases and transcription factors
      pfam06467
      Location:372 → 415
      zf-FCS; MYM-type Zinc finger with FCS sequence motif

    5. XM_011535310.3 → XP_011533612.1  zinc finger MYM-type protein 5 isoform X3

      Conserved Domains (2) summary
      smart00597
      Location:408 → 483
      ZnF_TTF; zinc finger in transposases and transcription factors
      pfam06467
      Location:217 → 260
      zf-FCS; MYM-type Zinc finger with FCS sequence motif

    6. XM_011535309.3 → XP_011533611.1  zinc finger MYM-type protein 5 isoform X1

      Conserved Domains (2) summary
      smart00597
      Location:590 → 665
      ZnF_TTF; zinc finger in transposases and transcription factors
      pfam06467
      Location:399 → 442
      zf-FCS; MYM-type Zinc finger with FCS sequence motif

    7. XM_047430772.1 → XP_047286728.1  zinc finger MYM-type protein 5 isoform X9

    8. XM_024449437.2 → XP_024305205.1  zinc finger MYM-type protein 5 isoform X7

    9. XM_024449436.2 → XP_024305204.1  zinc finger MYM-type protein 5 isoform X5

      Conserved Domains (1) summary
      smart00746
      Location:271 → 307
      TRASH; metallochaperone-like domain

    10. XM_047430771.1 → XP_047286727.1  zinc finger MYM-type protein 5 isoform X8

    11. XM_047430770.1 → XP_047286726.1  zinc finger MYM-type protein 5 isoform X8

    12. XM_017020851.3 → XP_016876340.1  zinc finger MYM-type protein 5 isoform X6

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      19019698..19059861 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054375178.1 → XP_054231153.1  zinc finger MYM-type protein 5 isoform X4

    2. XM_054375175.1 → XP_054231150.1  zinc finger MYM-type protein 5 isoform X2

      UniProtKB/Swiss-Prot
      B2R6V1, Q5T6E1, Q5T6E2, Q5T6E4, Q96IY6, Q9NZY5, Q9UBW0, Q9UJ77, Q9UJ78

    3. XM_054375177.1 → XP_054231152.1  zinc finger MYM-type protein 5 isoform X4

    4. XM_054375174.1 → XP_054231149.1  zinc finger MYM-type protein 5 isoform X2

      UniProtKB/Swiss-Prot
      B2R6V1, Q5T6E1, Q5T6E2, Q5T6E4, Q96IY6, Q9NZY5, Q9UBW0, Q9UJ77, Q9UJ78

    5. XM_054375176.1 → XP_054231151.1  zinc finger MYM-type protein 5 isoform X3

    6. XM_054375173.1 → XP_054231148.1  zinc finger MYM-type protein 5 isoform X1

    7. XM_054375184.1 → XP_054231159.1  zinc finger MYM-type protein 5 isoform X9

    8. XM_054375181.1 → XP_054231156.1  zinc finger MYM-type protein 5 isoform X7

    9. XM_054375179.1 → XP_054231154.1  zinc finger MYM-type protein 5 isoform X5

    10. XM_054375183.1 → XP_054231158.1  zinc finger MYM-type protein 5 isoform X8

    11. XM_054375182.1 → XP_054231157.1  zinc finger MYM-type protein 5 isoform X8

    12. XM_054375180.1 → XP_054231155.1  zinc finger MYM-type protein 5 isoform X6

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_014242.1: Suppressed sequence

      Description
      NM_014242.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9UJ78.4 GenPept UniProtKB/Swiss-Prot:Q9UJ78

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