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Aliases for LIMS4 Gene

Aliases for LIMS4 Gene

  • LIM Zinc Finger Domain Containing 4 2 3 5
  • LIM And Senescent Cell Antigen-Like-Containing Domain Protein 3-Like 3 4
  • LIM And Senescent Cell Antigen-Like Domains 3-Like 2 3
  • LIM-Type Zinc Finger Domains 4 2 3
  • LIMS3L 3 4
  • LIM And Senescent Cell Antigen-Like-Containing Domain Protein 4 3
  • Particularly Interesting New Cys-His Protein 3 3

External Ids for LIMS4 Gene

Previous HGNC Symbols for LIMS4 Gene

  • LIMS3L

Summaries for LIMS4 Gene

GeneCards Summary for LIMS4 Gene

LIMS4 (LIM Zinc Finger Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is LIMS3.

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LIMS4 Gene

Genomics for LIMS4 Gene

Regulatory Elements for LIMS4 Gene

Enhancers for LIMS4 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
GH02G110470 0.7 Ensembl 0.7 +2.9 2875 0.8 TEAD1 CEBPB CEBPG BMI1 DPF2 ZNF384 RAD21 YY1 TEAD3 ZNF664 ENSG00000257207 LIMS4 LOC105373552
GH02G110469 0.6 Ensembl 0.7 +3.8 3775 0.2 MTA2 TRIM22 CEBPG BMI1 DPF2 TARDBP IKZF1 RELB IKZF2 LIMS4 ENSG00000257207 LOC105373552
GH02G110481 0.5 Ensembl 0.4 -8.4 -8426 0.2 MTA2 FOXK2 RELB TBX21 IKZF2 LIMS4 ENSG00000257207 LOC102724875
GH02G110448 0.6 Ensembl 0.3 +23.8 23775 2.2 ZNF680 HLF CEBPB DPF2 CEBPG KLF4 MNT FOXA1 CEBPA LOC105373552 LIMS4 ENSG00000257207
GH02G110465 0.4 Ensembl 0.4 +7.4 7375 1.4 HNF4A ZBTB40 LIMS4 ENSG00000257207 LOC105373552
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LIMS4 on UCSC Golden Path with GeneCards custom track

Promoters for LIMS4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000121651 875 801

Genomic Location for LIMS4 Gene

Chromosome:
2
Start:
110,445,883 bp from pter
End:
110,473,075 bp from pter
Size:
27,193 bases
Orientation:
Minus strand

Genomic View for LIMS4 Gene

Genes around LIMS4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LIMS4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LIMS4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LIMS4 Gene

Proteins for LIMS4 Gene

  • Protein details for LIMS4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0CW20-LIMS4_HUMAN
    Recommended name:
    LIM and senescent cell antigen-like-containing domain protein 4
    Protein Accession:
    P0CW20
    Secondary Accessions:
    • C9K0W2

    Protein attributes for LIMS4 Gene

    Size:
    117 amino acids
    Molecular mass:
    13251 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LIMS4 Gene

Post-translational modifications for LIMS4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LIMS4 Gene

No data available for DME Specific Peptides for LIMS4 Gene

Domains & Families for LIMS4 Gene

Gene Families for LIMS4 Gene

Protein Domains for LIMS4 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LIMS4 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LIMS4: view

No data available for UniProtKB/Swiss-Prot for LIMS4 Gene

Function for LIMS4 Gene

Gene Ontology (GO) - Molecular Function for LIMS4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with LIMS4: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LIMS4 Gene

Localization for LIMS4 Gene

Gene Ontology (GO) - Cellular Components for LIMS4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005925 focal adhesion IEA --
GO:0016020 membrane IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with LIMS4: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for LIMS4 Gene

Pathways & Interactions for LIMS4 Gene

SuperPathways for LIMS4 Gene

No Data Available

Interacting Proteins for LIMS4 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000404432%0d%0a9606.ENSP00000232014%0d%0a
Selected Interacting proteins: ENSP00000404432 P0CW20-LIMS4_HUMAN for LIMS4 Gene via STRING UniProtKB IID

Gene Ontology (GO) - Biological Process for LIMS4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045216 cell-cell junction organization IEA --
genes like me logo Genes that share ontologies with LIMS4: view

No data available for Pathways by source and SIGNOR curated interactions for LIMS4 Gene

Drugs & Compounds for LIMS4 Gene

No Compound Related Data Available

Transcripts for LIMS4 Gene

mRNA/cDNA for LIMS4 Gene

(5) REFSEQ mRNAs :
(5) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for LIMS4 Gene

No ASD Table

Relevant External Links for LIMS4 Gene

GeneLoc Exon Structure for
LIMS4
ECgene alternative splicing isoforms for
LIMS4

Expression for LIMS4 Gene

NURSA nuclear receptor signaling pathways regulating expression of LIMS4 Gene:

LIMS4

Evidence on tissue expression from TISSUES for LIMS4 Gene

  • Kidney(4.1)
  • Nervous system(4)
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , 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 , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LIMS4 Gene

Orthologs for LIMS4 Gene

This gene was present in the common ancestor of animals.

Orthologs for LIMS4 Gene

Organism Taxonomy Gene Similarity Type Details
mouse
(Mus musculus)
Mammalia Lims1 35
  • 27 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 35
  • 26 (a)
OneToMany
cow
(Bos Taurus)
Mammalia MGC142792 35
  • 15 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 15 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 14 (a)
OneToMany
chicken
(Gallus gallus)
Aves LIMS1 35
  • 15 (a)
ManyToMany
-- 35
ManyToMany
-- 35
ManyToMany
-- 35
ManyToMany
-- 35
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 23 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii lims1 35
  • 15 (a)
ManyToMany
lims2 35
  • 15 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta stck 35
  • 10 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea unc-97 35
  • 7 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.11312 35
  • 12 (a)
OneToMany
Species where no ortholog for LIMS4 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)
  • chimpanzee (Pan troglodytes)
  • 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 LIMS4 Gene

ENSEMBL:
Gene Tree for LIMS4 (if available)
TreeFam:
Gene Tree for LIMS4 (if available)

Paralogs for LIMS4 Gene

genes like me logo Genes that share paralogs with LIMS4: view

Variants for LIMS4 Gene

Sequence variations from dbSNP and Humsavar for LIMS4 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000081983 -- 110,402,920(+) TGTTT(C/T)ATAGG intron-variant, nc-transcript-variant, upstream-variant-2KB
rs1000900036 -- 110,419,517(+) CGCCT(C/G)TAGTC intron-variant
rs1001116240 -- 110,397,280(+) TTAAC(A/T)GAGAG intron-variant, nc-transcript-variant
rs1001139445 -- 110,418,477(+) GCATC(A/G)ATCAC intron-variant
rs1001635768 -- 110,456,885(+) GGTTT(-/C)CCTAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LIMS4 Gene

Variant ID Type Subtype PubMed ID
dgv1162e212 CNV gain 25503493
dgv1163e212 CNV loss 25503493
dgv4037n100 CNV gain 25217958
dgv4047n100 CNV loss 25217958
dgv730e214 CNV gain 21293372
esv2751812 CNV loss 17911159
esv28875 CNV gain+loss 19812545
esv3575292 CNV gain 25503493
esv3584010 CNV loss 25503493
nsv1003103 CNV gain+loss 25217958
nsv1149522 OTHER inversion 26484159
nsv469649 CNV loss 16826518
nsv508157 CNV deletion 20534489
nsv510884 OTHER complex 20534489
nsv979089 CNV duplication 23825009
nsv979092 CNV duplication 23825009

Relevant External Links for LIMS4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LIMS4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for LIMS4 Gene

Disorders for LIMS4 Gene

Relevant External Links for LIMS4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LIMS4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LIMS4

No disorders were found for LIMS4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LIMS4 Gene

Publications for LIMS4 Gene

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier L.W. … Wilson R.K. (Nature 2005) 3 4 64
  2. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 64
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 64

Products for LIMS4 Gene

Sources for LIMS4 Gene

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