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    ZNF561 zinc finger protein 561 [ Homo sapiens (human) ]

    Gene ID: 93134, updated on 10-Dec-2024

    Summary

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    Official Symbol
    ZNF561provided by HGNC
    Official Full Name
    zinc finger protein 561provided by HGNC
    Primary source
    HGNC:HGNC:28684
    See related
    Ensembl:ENSG00000171469 AllianceGenome:HGNC:28684
    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 DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in urinary bladder (RPKM 8.9), endometrium (RPKM 7.5) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF561 in Genome Data Viewer
    Location:
    19p13.2
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (9607329..9621232, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (9733531..9747444, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (9718005..9731908, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene NANOG hESC enhancer GRCh37_chr19:9677059-9677560 Neighboring gene zinc finger protein 121 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:9692318-9693131 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:9693132-9693944 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:9694759-9695570 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:9700111-9700757 Neighboring gene uncharacterized LOC105376914 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:9731087-9731669 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13932 Neighboring gene ZNF561 antisense RNA 1 (head to head) Neighboring gene zinc finger protein 562 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:9784745-9785944

    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. Acetylation-Mimic Mutation of TRIM28-Lys304 to Gln Attenuates the Interaction with KRAB-Zinc-Finger Proteins and Affects Gene Expression in Leukemic K562 Cells. Chang YJ, et al. Int J Mol Sci, 2023 Jun 6. PMID 37372979, Free PMC Article
    2. Loss of ER retention motif of AGR2 can impact mTORC signaling and promote cancer metastasis. Tiemann K, et al. Oncogene, 2019 Apr. PMID 30575818, Free PMC Article
    3. Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions. Suzuki Y, et al. Genome Res, 2004 Sep. PMID 15342556, Free PMC Article
    4. 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
    5. Physical and functional interactome atlas of human receptor tyrosine kinases. Salokas K, et al. EMBO Rep, 2022 Jun 7. PMID 35384245, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    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

    Clone Names

    • MGC45408

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 561

    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_001330365.2 → NP_001317294.1  zinc finger protein 561 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC008759, AK122974, HY015530
      Consensus CDS
      CCDS82286.1
      UniProtKB/TrEMBL
      A8KAD9
      Related
      ENSP00000393074.1, ENST00000424629.5
      Conserved Domains (3) summary
      COG5048
      Location:202 → 398
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:242 → 262
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:105 → 122
      ZF_C2H2; C2H2 Zn finger [structural motif]

    2. NM_152289.3 → NP_689502.2  zinc finger protein 561 isoform 1

      See identical proteins and their annotated locations for NP_689502.2

      Status: VALIDATED

      Source sequence(s)
      AK122974, BC032668, BP230901, CA415776
      Consensus CDS
      CCDS12216.2
      UniProtKB/Swiss-Prot
      B4E2Q8, Q6PJS0, Q8N587
      Related
      ENSP00000303915.3, ENST00000302851.8
      Conserved Domains (4) summary
      COG5048
      Location:271 → 467
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:311 → 331
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:174 → 191
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:40 → 80
      KRAB; KRAB box

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      9607329..9621232 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006722938.4 → XP_006723001.1  zinc finger protein 561 isoform X1

      See identical proteins and their annotated locations for XP_006723001.1

      Conserved Domains (7) summary
      smart00349
      Location:47 → 102
      KRAB; krueppel associated box
      COG5048
      Location:277 → 473
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:317 → 337
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:180 → 197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:287 → 309
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:47 → 86
      KRAB; KRAB box
      pfam13465
      Location:442 → 465
      zf-H2C2_2; Zinc-finger double domain

    2. XM_011528434.3 → XP_011526736.1  zinc finger protein 561 isoform X1

      See identical proteins and their annotated locations for XP_011526736.1

      Conserved Domains (7) summary
      smart00349
      Location:47 → 102
      KRAB; krueppel associated box
      COG5048
      Location:277 → 473
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:317 → 337
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:180 → 197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:287 → 309
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:47 → 86
      KRAB; KRAB box
      pfam13465
      Location:442 → 465
      zf-H2C2_2; Zinc-finger double domain

    3. XM_005260150.3 → XP_005260207.1  zinc finger protein 561 isoform X2

      See identical proteins and their annotated locations for XP_005260207.1

      UniProtKB/Swiss-Prot
      B4E2Q8, Q6PJS0, Q8N587
      Conserved Domains (4) summary
      COG5048
      Location:271 → 467
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:311 → 331
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:174 → 191
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:40 → 80
      KRAB; KRAB box

    4. XM_047439708.1 → XP_047295664.1  zinc finger protein 561 isoform X1

    5. XM_047439709.1 → XP_047295665.1  zinc finger protein 561 isoform X2

      UniProtKB/Swiss-Prot
      B4E2Q8, Q6PJS0, Q8N587

    6. XM_047439710.1 → XP_047295666.1  zinc finger protein 561 isoform X3

    7. XM_024451781.2 → XP_024307549.1  zinc finger protein 561 isoform X4

      UniProtKB/TrEMBL
      A8KAD9
      Conserved Domains (3) summary
      COG5048
      Location:202 → 398
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:242 → 262
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:105 → 122
      ZF_C2H2; C2H2 Zn finger [structural motif]

    8. XM_047439712.1 → XP_047295668.1  zinc finger protein 561 isoform X5

    9. XM_017027479.3 → XP_016882968.1  zinc finger protein 561 isoform X4

      UniProtKB/TrEMBL
      A8KAD9
      Conserved Domains (3) summary
      COG5048
      Location:202 → 398
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:242 → 262
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:105 → 122
      ZF_C2H2; C2H2 Zn finger [structural motif]

    10. XM_047439711.1 → XP_047295667.1  zinc finger protein 561 isoform X3

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      9733531..9747444 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054322662.1 → XP_054178637.1  zinc finger protein 561 isoform X2

      UniProtKB/Swiss-Prot
      B4E2Q8, Q6PJS0, Q8N587

    2. XM_054322660.1 → XP_054178635.1  zinc finger protein 561 isoform X1

    3. XM_054322661.1 → XP_054178636.1  zinc finger protein 561 isoform X1

    4. XM_054322663.1 → XP_054178638.1  zinc finger protein 561 isoform X2

      UniProtKB/Swiss-Prot
      B4E2Q8, Q6PJS0, Q8N587

    5. XM_054322664.1 → XP_054178639.1  zinc finger protein 561 isoform X3

    6. XM_054322666.1 → XP_054178641.1  zinc finger protein 561 isoform X4

      UniProtKB/TrEMBL
      A8KAD9

    7. XM_054322668.1 → XP_054178643.1  zinc finger protein 561 isoform X5

    8. XM_054322667.1 → XP_054178642.1  zinc finger protein 561 isoform X4

      UniProtKB/TrEMBL
      A8KAD9

    9. XM_054322665.1 → XP_054178640.1  zinc finger protein 561 isoform X3

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8N587.2 GenPept UniProtKB/Swiss-Prot:Q8N587

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