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

Gene ID: 9205, updated on 2-Nov-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, Nov 2024]
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_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (19823482..19863649, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (19019698..19059861, complement)
RS_2024_09 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 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 (26) 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_2024_08

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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