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Aliases for MIR3940 Gene

Subcategory (RNA class) for MIR3940 Gene

miRNA

Quality Score for this RNA gene is

3

Aliases for MIR3940 Gene

  • MicroRNA 3940 2 3
  • KHSRP 4 5
  • KH Type-Splicing Regulatory Protein 4
  • KH-Type Splicing Regulatory Protein 5
  • FUSE-Binding Protein 2 4
  • Hsa-Mir-3940 3
  • Mir-3940 3
  • FUBP2 4
  • KSRP 4
  • P75 4

External Ids for MIR3940 Gene

Previous GeneCards Identifiers for MIR3940 Gene

  • GC19U901447

Summaries for MIR3940 Gene

Entrez Gene Summary for MIR3940 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 MIR3940 Gene

MIR3940 (MicroRNA 3940) is an RNA Gene, and is affiliated with the miRNA class. Among its related pathways are Metabolism of proteins and Regulation of activated PAK-2p34 by proteasome mediated degradation. An important paralog of this gene is FUBP1.

UniProtKB/Swiss-Prot for MIR3940 Gene

  • Binds to the dendritic targeting element and may play a role in mRNA trafficking (By similarity). Part of a ternary complex that binds to the downstream control sequence (DCS) of the pre-mRNA. Mediates exon inclusion in transcripts that are subject to tissue-specific alternative splicing. May interact with single-stranded DNA from the far-upstream element (FUSE). May activate gene expression. Also involved in degradation of inherently unstable mRNAs that contain AU-rich elements (AREs) in their 3-UTR, possibly by recruiting degradation machinery to ARE-containing mRNAs.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MIR3940 Gene

Genomics for MIR3940 Gene

Regulatory Elements for MIR3940 Gene

Enhancers for MIR3940 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F006423 1.1 ENCODE 0.8 +0.1 124 3.2 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 SIN3A ARID4B ZNF2 YY1 SLC30A9 SNRPEP4 SAFB2 ZNF557 GTF2F1 SAFB VMAC ENSG00000267571 MIR6791 ENSG00000269680 CLPP
GH19F006422 0.4 ENCODE 0.8 +2.7 2710 0.2 ZNF263 GC19M006424 MIR3940 GC19P006415
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around MIR3940 on UCSC Golden Path with GeneCards custom track

Promoters for MIR3940 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000640862 194 2401 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 SIN3A ARID4B ZNF2 YY1 SLC30A9

Genomic Location for MIR3940 Gene

Chromosome:
19
Start:
6,413,348 bp from pter
End:
6,424,794 bp from pter
Size:
11,447 bases
Orientation:
Minus strand

Genomic View for MIR3940 Gene

Genes around MIR3940 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MIR3940 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MIR3940 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MIR3940 Gene

Proteins for MIR3940 Gene

  • Protein details for MIR3940 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92945-FUBP2_HUMAN
    Recommended name:
    Far upstream element-binding protein 2
    Protein Accession:
    Q92945
    Secondary Accessions:
    • O00301
    • Q59EZ9
    • Q5U4P6
    • Q9UNT5
    • Q9UQH5

    Protein attributes for MIR3940 Gene

    Size:
    711 amino acids
    Molecular mass:
    73115 Da
    Quaternary structure:
    • Part of a ternary complex containing FUBP2, PTBP1, PTBP2 and HNRPH1. Interacts with PARN.
    • Part of a ternary complex containing FUBP2, PTBP1, PTBP2 and HNRPH1. Interacts with PARN.
    SequenceCaution:
    • Sequence=AAC50892.1; Type=Frameshift; Positions=304, 309, 466, 473; Evidence={ECO:0000305}; Sequence=AAH85004.1; Type=Miscellaneous discrepancy; Note=Aberrant splicing.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for MIR3940 Gene

neXtProt entry for MIR3940 Gene

Post-translational modifications for MIR3940 Gene

  • Phosphorylation at Ser-193 leads to the unfolding of the unstable KH domain 1, creating a site for 14-3-3 YWHAZ binding, which promotes nuclear localization and impairs the RNA degradation function.
  • Ubiquitination at Lys 109 and Lys 488
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for MIR3940 Gene

Domains & Families for MIR3940 Gene

Gene Families for MIR3940 Gene

Protein Domains for MIR3940 Gene

Graphical View of Domain Structure for InterPro Entry

Q92945

UniProtKB/Swiss-Prot:

FUBP2_HUMAN :
  • KH domains KH 3 and KH 4 behave as independent binding modules and can interact with different regions of the AU-rich RNA targets of degradation.
  • Belongs to the KHSRP family.
Domain:
  • KH domains KH 3 and KH 4 behave as independent binding modules and can interact with different regions of the AU-rich RNA targets of degradation.
  • Contains 4 KH domains.
Family:
  • Belongs to the KHSRP family.
genes like me logo Genes that share domains with MIR3940: view

No data available for Suggested Antigen Peptide Sequences for MIR3940 Gene

Function for MIR3940 Gene

Molecular function for MIR3940 Gene

UniProtKB/Swiss-Prot Function:
Binds to the dendritic targeting element and may play a role in mRNA trafficking (By similarity). Part of a ternary complex that binds to the downstream control sequence (DCS) of the pre-mRNA. Mediates exon inclusion in transcripts that are subject to tissue-specific alternative splicing. May interact with single-stranded DNA from the far-upstream element (FUSE). May activate gene expression. Also involved in degradation of inherently unstable mRNAs that contain AU-rich elements (AREs) in their 3-UTR, possibly by recruiting degradation machinery to ARE-containing mRNAs.

Gene Ontology (GO) - Molecular Function for MIR3940 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA --
GO:0003729 mRNA binding IEA --
GO:0005515 protein binding IPI --
genes like me logo Genes that share ontologies with MIR3940: view

Animal Model Products

miRNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for MIR3940 Gene

Localization for MIR3940 Gene

Subcellular locations from UniProtKB/Swiss-Prot for MIR3940 Gene

Nucleus. Cytoplasm. Note=A small proportion is also found in the cytoplasm of neuronal cell bodies and dendrites. {ECO:0000250}.

Gene Ontology (GO) - Cellular Components for MIR3940 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0010494 cytoplasmic stress granule IEA --
genes like me logo Genes that share ontologies with MIR3940: view

No data available for Subcellular locations from COMPARTMENTS for MIR3940 Gene

Pathways & Interactions for MIR3940 Gene

genes like me logo Genes that share pathways with MIR3940: view

Gene Ontology (GO) - Biological Process for MIR3940 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000375 RNA splicing, via transesterification reactions TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006397 mRNA processing TAS --
GO:0006402 mRNA catabolic process IEA --
genes like me logo Genes that share ontologies with MIR3940: view

No data available for SIGNOR curated interactions for MIR3940 Gene

Transcripts for MIR3940 Gene

mRNA/cDNA for MIR3940 Gene

(14) Ensembl transcripts including schematic representations, and UCSC links where relevant :

miRNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for MIR3940 Gene

No ASD Table

Relevant External Links for MIR3940 Gene

GeneLoc Exon Structure for
MIR3940
ECgene alternative splicing isoforms for
MIR3940

Expression for MIR3940 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for MIR3940 Gene

NURSA nuclear receptor signaling pathways regulating expression of MIR3940 Gene:

MIR3940

mRNA Expression by UniProt/SwissProt for MIR3940 Gene:

Q92945-FUBP2_HUMAN
Tissue specificity: Detected in neural and non-neural cell lines.
genes like me logo Genes that share expression patterns with MIR3940: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for MIR3940 Gene

Orthologs for MIR3940 Gene

This gene was present in the common ancestor of animals.

Orthologs for MIR3940 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia KHSRP 35
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Khsrp 35
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia KHSRP 35
  • 93 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia KHSRP 35
  • 91 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia KHSRP 35
  • 86 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia KHSRP 35
  • 83 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia KHSRP 35
  • 87 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii khsrp 35
  • 69 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Psi 35
  • 24 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C12D8.1 35
  • 27 (a)
ManyToMany
ZK418.9 35
  • 27 (a)
ManyToMany
C36E6.1 35
  • 26 (a)
ManyToMany
M01A10.1 35
  • 25 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 33 (a)
ManyToMany
-- 35
  • 30 (a)
ManyToMany
-- 35
  • 21 (a)
ManyToMany
Species where no ortholog for MIR3940 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for MIR3940 Gene

ENSEMBL:
Gene Tree for MIR3940 (if available)
TreeFam:
Gene Tree for MIR3940 (if available)

Paralogs for MIR3940 Gene

Paralogs for MIR3940 Gene

Pseudogenes.org Pseudogenes for MIR3940 Gene

genes like me logo Genes that share paralogs with MIR3940: view

Variants for MIR3940 Gene

Sequence variations from dbSNP and Humsavar for MIR3940 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10405418 -- 6,418,184(+) CTGGG(A/T)GAGCC intron-variant, upstream-variant-2KB
rs112375724 -- 6,418,144(+) CTCCT(C/T)GGGGG intron-variant, upstream-variant-2KB
rs112523079 -- 6,416,200(+) CCCCC(C/T)GCCTG intron-variant, downstream-variant-500B
rs113515142 -- 6,418,296(+) CGGTG(C/T)CTCAC intron-variant, upstream-variant-2KB
rs115090110 -- 6,416,975(+) CACCC(A/G)GGGCC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for MIR3940 Gene

Variant ID Type Subtype PubMed ID
nsv833727 CNV loss 17160897

Relevant External Links for MIR3940 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
MIR3940

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for MIR3940 Gene

Disorders for MIR3940 Gene

Relevant External Links for MIR3940

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
MIR3940

No disorders were found for MIR3940 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MIR3940 Gene

Publications for MIR3940 Gene

  1. N-terminome analysis of the human mitochondrial proteome. (PMID: 25944712) Vaca Jacome A.S. … Carapito C. (Proteomics 2015) 4 64
  2. Immunoaffinity enrichment and mass spectrometry analysis of protein methylation. (PMID: 24129315) Guo A. … Comb M.J. (Mol. Cell. Proteomics 2014) 4 64
  3. An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome. (PMID: 24275569) Bian Y. … Zou H. (J. Proteomics 2014) 4 64
  4. Mapping of SUMO sites and analysis of SUMOylation changes induced by external stimuli. (PMID: 25114211) Impens F. … Ribet D. (Proc. Natl. Acad. Sci. U.S.A. 2014) 4 64
  5. Expression of miR-150 and miR-3940-5p is reduced in non-small cell lung carcinoma and correlates with clinicopathological features. (PMID: 23228962) Sun Y. … Gao W. (Oncol. Rep. 2013) 3 64

Products for MIR3940 Gene

Sources for MIR3940 Gene

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