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MIR3180-4 Gene

RNA gene   GIFtS: 14
GCID: GC16M015251

MicroRNA 3180-4

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Aliases
for MIR3180-4 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Subcategory (RNA class): lncRNA

Quality score for this RNA gene is 3

Aliases
MicroRNA 3180-41 2
mir-3180-49

External Ids:    HGNC: 389201   Entrez Gene: 1005008522   Ensembl: ENSG000002573917   
ORGUL members:         

Export aliases for MIR3180-4 gene to outside databases

Previous GC identifers: GC16U901272 GC16P015249


Summaries
for MIR3180-4 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for MIR3180-4 Gene:
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, Sep 2009)

GeneCards Summary for MIR3180-4 Gene:
MIR3180-4 (microRNA 3180-4) is an RNA gene, and is affiliated with the lncRNA class.




Genomic Views
for MIR3180-4 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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TryGeneCards Plus		 Regulatory elements:
   Search for regulatory transcription factor binding sites for MIR3180-4
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat MIR3180-4


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

Ensembl cytogenetic band:  16p13.11   HGNC chromosome: 16

MIR3180-4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MIR3180-4 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M015251:  view genomic region (via miRBase)     (about GC identifiers)

Start:
 15,248,707 bp from pter      End:
 15,248,859 bp from pter
Size:
 153 bases      Orientation:
 minus strand

1 alternative location:
Chr16+ 15,248,760-15,250,877     

Proteins
for MIR3180-4 gene

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB: --

Domains /
Families
for MIR3180-4 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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MIR: ncRNAs / Micro RNAs

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Function
for MIR3180-4 gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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miRNA
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Localization
for MIR3180-4 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Pathways & Interactions
for MIR3180-4 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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Drugs & Compounds
for MIR3180-4 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Transcripts
for MIR3180-4 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000552015(lincRNA)
miRNA
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Primer
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GeneLoc Exon Structure


Expression
for MIR3180-4 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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Expression evidence for MIR3180-4:none

See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

MIR3180-4 Protein expression data from MOPED1, PaxDb2 and MaxQB3:  --
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In Situ
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Orthologs
for MIR3180-4 gene

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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ENSEMBL Gene Tree for MIR3180-4 (if available)
TreeFam Gene Tree for MIR3180-4 (if available)

Paralogs
for MIR3180-4 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Genomic Variants
for MIR3180-4 gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for MIR3180-4 (see all 23)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance		Chr 16 posSequence#AA
Chg		TypeMore#Allele
freq		PopTotal
sample		More
----------
rs1891745431,2
--15248476(+) GCGGAA/GGCCGC 1 -- ds50010--------
rs1922167151,2
--15248564(+) CGCCCA/GCTCGA 1 -- ds50010--------
rs785696091,2
C--15248703(+) CGGGTG/TCAGGC 1 -- ds50010--------
rs26652511,2
C--15248930(-) TGCAGT/AGGGGC 1 -- us2k11Minor allele frequency- A:0.00NA 2
rs1472623401,2
--15249288(+) CCCACA/GTCCTC 1 -- us2k10--------
rs1493228621,2
C--15250028(+) AAAAAA/GTCCTA 1 -- us2k10--------
rs1472776211,2
C--15250114(+) AGCCTA/GAGCAG 1 -- us2k10--------
rs1997135901,2
C--15250229(+) CATTCC/GAGTTG 1 -- us2k10--------
rs1404145821,2
--15250422(+) AGTTTA/GTTTTG 1 -- us2k10--------
rs2010746191,2
C--15250431(+) TGAGAA/GTCAAA 1 -- us2k10--------

HapMap Linkage Disequilibrium report for MIR3180-4 (15248707 - 15248859 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for MIR3180-4 (see all 11):    About this table    
Variant IDTypeSubtypePubMed ID
esv2671608CNV Deletion23128226
esv21621CNV Loss19812545
nsv905374CNV Gain21882294
dgv2609n71CNV Gain21882294
nsv905380CNV Gain21882294
nsv9359CNV Gain+Loss18304495
essv12354CNV CNV17122850
dgv811e1CNV Complex17122850
dgv815e1CNV Complex17122850
nsv7277OTHER Inversion18451855

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Disorders / Diseases
for MIR3180-4 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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Publications
for MIR3180-4 gene

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for MIR3180-4 gene integrated from 10 sources:
(articles sorted by number of sources associating them with MIR3180-4)		    Utopia: connect your pdf to the dynamic
world of online information

  1. Discovery of novel microRNAs in female reproductive tract using next generation sequencing. (PubMed id 20224791)1 Creighton C.J....Gunaratne P.H. (PLoS ONE 2010)
  2. miRBase: microRNA sequences, targets and gene nomenclature. (PubMed id 16381832)1 Griffiths-Jones S....Enright A.J. (Nucleic Acids Res. 2006)

External Searches for MIR3180-4 gene

(in PubMed, OMIM, and NCBI Bookshelf)
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 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 MIR3180-4 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 100500852 HGNC: 38920 Ensembl:ENSG00000257391 miRBase: hsa-mir-3180-4 euGenes: HUgn100500852
ECgene: MIR3180-4 H-InvDB: MIR3180-4

Other Databases showing MIR3180-4 gene

(According to HUGE)
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Specialized Databases showing MIR3180-4 gene

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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Intellectual Property
for MIR3180-4 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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TryGeneCards Plus		Patent Information for MIR3180-4 gene:
Search GeneIP for patents involving MIR3180-4

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



Products
for MIR3180-4 gene

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Advanced Cell Diagnostics, Animal models from genOway)
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