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MIR3198 Gene

RNA gene   GIFtS: 29

GC22M002061
microRNA 3198
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Products    

Aliases &
Descriptions
for MIR3198 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section
Aliases & Descriptions
microRNA 31981 2
hsa-mir-31981
Heterochromatin protein 1 homolog alpha3
HP1A3
HP1 alpha3
Antigen p253

External Ids:    HGNC: 382361   Entrez Gene: 1004230252   Ensembl: ENSG000000949167   UniProtKB: P459733   

Export aliases for MIR3198 gene to outside databases

Previous GC identifer: GC22U900694


Summaries
for MIR3198 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for MIR3198:
microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene
expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed
by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either
protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an
approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer
ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated
into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the
miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq
represents the predicted microRNA stem-loop. (provided by RefSeq)

UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973
Function: Component of heterochromatin that recognizes and binds histone H3 tails methylated at 'Lys-9' (H3K9me),
leading to epigenetic repression. In contrast, it is excluded from chromatin when 'Tyr-41' of histone H3 is
phosphorylated (H3Y41ph). Can interact with lamin-B receptor (LBR). This interaction can contribute to the association
of the heterochromatin with the inner nuclear membrane. Involved in the formation of functional kinetochore through
interaction with MIS12 complex proteins


Genomic Views
for MIR3198 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for MIR3198
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for MIR3198

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Ensembl cytogenetic band:  12q13.13   HGNC chromosome: 22

MIR3198 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MIR3198 gene location

GeneLoc gene densities for chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22M002061:  view genomic region     (about GC identifiers)

Start:
 18,246,946 bp from pter
End:
 18,247,025 bp from pter
Size:
 80 bases
Orientation:
 minus strand

1 alternative location:
Chr12- 54,624,733-54,673,915     

Proteins
for MIR3198 gene

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section
UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973 (See protein sequence)
Recommended Name: Chromobox protein homolog 5  
Size: 191 amino acids; 22225 Da
Subunit: Interacts with SUV420H1 and SUV420H2 (By similarity). Interacts with HP1BP3 (By similarity). Interacts
directly with ATRX, CHAF1A, LBR, NIPBL, SP100, STAM2 and TRIM28 via the chromoshadow domain. Can interact directly
with CBX3 via the chromoshadow domain. Interacts with histone H3 methylated at 'Lys-9'. Interacts with BAHD1, MIS12
and DSN1. Interacts with POGZ; POGZ and PXVXL motif-containing proteins such as INCENP and TRIM28 compete for
interaction with CBX5. Interacts with INCENP. Interacts with JC virus agnoprotein; this interaction induces the
dissociation of CBX5 from LBR, resulting in destabilization of the nuclear envelope
Subcellular location: Nucleus. Chromosome. Chromosome, centromere. Note=Component of centromeric and pericentromeric
heterochromatin. Associates with chromosomes during mitosis. Associates specifically with chromatin during metaphase
and anaphase
PDB structure from and Proteopedia :
3FDT (3D)    3I3C (3D)    
Secondary accessions: B2R8T9

Explore the universe of human proteins at neXtProt for MIR3198: NX_P45973 

Post-translational modifications:

  • Phosphorylation of HP1 and LBR may be responsible for some of the alterations in chromatin organization and nuclear
    • structure which occur at various times during the cell cycle (By similarity). Phosphorylated during interphase and
    possibly hyper-phosphorylated during mitosis1
  • Ubiquitinated1
  • View phosphorylation sites using PhosphoSite2




    • ENSEMBL proteins: 
    ENSP00000401009 ENSP00000411524 ENSP00000209875 


    Human Recombinant Proteins 
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    5/15 Gene Ontology (GO) cellular component terms (GO ID links to tree view) (see all 15):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000118 histone deacetylase complex ----
    GO:0000776 kinetochore ----
    GO:0000785 chromatin ----
    GO:0000792 heterochromatin ----
    GO:0005634 nucleus ----
    About this table

    MIR3198 for ontologies           About GeneDecksing



    Antibodies for MIR3198: 
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    Protein Domains/
    Families
    for MIR3198 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    MIR3198 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR000953 Chromodomain
     IPR016197 Chromodomain-like
     IPR017984 Chromo_dom_subgr
     IPR008251 Chromo_shadow
     IPR018125 Chromo_shadow_sbgrp

    Graphical View of Domain Structure for InterPro Entry P45973

    ProtoNet protein and cluster: P45973

    2 Blocks protein families:
    IPB000953 Chromo domain
    IPB008251 Chromo shadow


    UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973
    Similarity: Contains 2 chromo domains


    Gene Function
    for MIR3198 gene

    (According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
    About This Section

    UniProtKB/Swiss-Prot: CBX5_HUMAN, P45973
    Function: Component of heterochromatin that recognizes and binds histone H3 tails methylated at 'Lys-9' (H3K9me),
    leading to epigenetic repression. In contrast, it is excluded from chromatin when 'Tyr-41' of histone H3 is
    phosphorylated (H3Y41ph). Can interact with lamin-B receptor (LBR). This interaction can contribute to the association
    of the heterochromatin with the inner nuclear membrane. Involved in the formation of functional kinetochore through
    interaction with MIS12 complex proteins

    Inhib.
    RNA:            		Browse for Gene Knock-down Tools from Millipore
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    miRNA:Browse microRNA Mimics at Sigma-Aldrich
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of MIR3198 
    Search SABiosciences for Assays for microRNAs that regulate MIR3198
    Search SABiosciences RT2 miRNA qPCR Primer Assays for MIR3198:

    Gene
    Editing:    		Browse CompoZr Knockout ZFN at Sigma-Aldrich 

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    Cell
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    5/9 Gene Ontology (GO) molecular function terms (GO ID links to tree view) (see all 9):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003682 chromatin binding ----
    GO:0005515 protein binding ----
    GO:0016564 transcription repressor activity ----
    GO:0016565 general transcriptional repressor activity ----
    GO:0019899 enzyme binding ----
    About this table

    MIR3198 for ontologies           About GeneDecksing


    Pathways & Interactions
    for MIR3198 gene

    (Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
    About This Section

        SABiosciences Custom Pathway-Focused PCR Arrays for MIR3198 

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for MIR3198

    5/37 Interacting proteins for MIR3198 (P459731, 2 ENSP000002098753) via UniProtKB, MINT, and/or STRING (see all 37)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TRIM28Q132631, 2, ENSP000002530243EBI-78219,EBI-78139 MINT-7221333 MINT-7220149 MINT-7220962 STRING: ENSP00000253024
    MBD1Q9UIS91, 2, ENSP000002694683EBI-78219,EBI-867196 MINT-7221302 STRING: ENSP00000269468
    CHAF1AQ131112, ENSP000003012803MINT-7221333 MINT-7220149 MINT-7221095 MINT-7220962 STRING: ENSP00000301280
    H3F3AP842432, ENSP000003557813MINT-7297192 MINT-7297122 STRING: ENSP00000355781
    SUV39H1O434631, ENSP000003658773EBI-78219,EBI-349968 STRING: ENSP00000365877
    About this table

    3 Gene Ontology (GO) biological process terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006333 chromatin assembly or disassembly ----
    GO:0016481 negative regulation of transcription ----
    GO:0045892 negative regulation of transcription, DNA-dependent ----
    About this table

    MIR3198 for ontologies           About GeneDecksing



    Drugs & Compounds
    for MIR3198 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section
    Browse Small Molecules at Sigma-Aldrich
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for MIR3198


    Transcripts
    for MIR3198 gene

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Millipore,
    siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
    Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
    About This Section
    Inhib.
    RNA:             		Browse for Gene Knock-down Tools from Millipore
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    miRNA: Browse microRNA Mimics at Sigma-Aldrich
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of MIR3198 
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    Clones: Browse FLAG tag genes at Sigma-Aldrich
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    Primers:Browse OriGene genome-wide validated SYBR primer pairs
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    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for MIR3198

    ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7
    SP1:                                                                              
    SP2:              -     -     -     -                                             
    SP3:                                                                              
    SP4:                                                                              
    SP5:              -                                                               

    About this scheme

    ECgene alternative splicing isoforms for MIR3198
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000439541(uc001sfh.3) ENST00000454593(uc001sfj.3) ENST00000209875(uc001sfk.3 uc001sfi.3)


    Expression
    for MIR3198 gene

    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Primers from OriGene and/or SABiosciences )
    About This Section

    MIR3198 expression in normal and diseased human tissues

    Data from GNF BioGPS
        About these images

    MIR3198 gene expression
    MIR3198 gene electronic northern expression
    MIR3198 gene sage expression
    About these images

    CGAP SAGE TAG: --
    Primers:Browse OriGene genome-wide validated SYBR primer pairs
    Browse OriGene validated miRNA SYBR primer pairs 
    Search SABiosciences RT2 qPCR Primer Assays for MIR3198
        SABiosciences Custom PCR Arrays for MIR3198 


    Orthologs
    for MIR3198 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section
    		 ENSEMBL Gene Tree for MIR3198 (if available)

    Paralogs
    for MIR3198 gene

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section
    Paralogs for MIR3198 gene
    MPHOSPH82  CBX32  CBX12  

    MIR3198 for paralogs           About GeneDecksing


    Pseudogenes
    2 related pseudogenes



    Genomic Variants
    for MIR3198 gene

    (SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
    About This Section
    Search QIAGEN SeqTarget long-range PCR primers for resequencing for MIR3198 

    Disorders & Mutations
    for MIR3198 gene

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    		   --

    Medical News
    for MIR3198 gene

    (Possibly Related Articles in Doctor's Guide)
    About This Section
    		   --

    Publications
    for MIR3198 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
    About This Section

    10/24 PubMed articles for MIR3198 gene, integrated from 7 sources (see all 24):
    (articles sorted by number of sources associating them with MIR3198)
    1. Characterization of the Melanoma miRNAome by Deep Seq uencing. (PubMed id 20300190)1 Stark M.S....Hayward N.K. (2010)
    2. Human POGZ modulates dissociation of HP1alpha from mi totic chromosome arms through Aurora B activation. (PubMed id 20562864)2 Nozawa R.S....Obuse C. (2010)
    3. Lamin A rod domain mutants target heterochromatin protein 1alpha and beta for proteasomal degradation by activation of F-box protein, FBXW10. (PubMed id 20498703)2 Chaturvedi P. and Parnaik V.K. (2010)
    4. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
    5. Human BAHD1 promotes heterochromatic gene silencing. (PubMed id 19666599)2 Bierne H.... Cossart P. (2009)
    6. JAK2 phosphorylates histone H3Y41 and excludes HP1alp ha from chromatin. (PubMed id 19783980)2 Dawson M.A....Kouzarides T. (2009)
    7. Evaluation of the low-specificity protease elastase for large-scale phosphoproteome analysis. (PubMed id 19007248)2 Wang B.... Korner R. (2008)
    8. Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. (PubMed id 18691976)2 Daub H.... Mann M. (2008)
    9. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
    10. Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry. (PubMed id 17287340)2 Molina H.... Pandey A. (2007)

    External Searches for MIR3198 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing MIR3198 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 100423025 HGNC: 38236 Ensembl:ENSG00000094916 euGenes: HUgn100423025 ECgene: MIR3198
    H-InvDB: MIR3198

    Other Databases showing MIR3198 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing MIR3198 gene

    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    		   --

    Intellectual Property
    for MIR3198 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from XenneX, Inc.)
    About This Section
    		Patent Information for MIR3198 gene:
    Search GeneIP for patents involving MIR3198

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for MIR3198 gene

    (Antibodies, recombinant proteins, and assays by Millipore, Sigma-Aldrich, R&D Systems, Qiagen, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Epitomics, ProSpec, Uscn,
    Clones available from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, PCR Arrays from SABiosciences, Drugs and/or compounds by Sigma-Aldrich, Tocris Bioscience, and/or Enzo Life Sciences)
    About This Section

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