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Aliases for ABLIM3 Gene

Aliases for ABLIM3 Gene

  • Actin Binding LIM Protein Family Member 3 2 3 5
  • AbLIM-3 3 4
  • Actin Binding LIM Protein Family, Member 3 2
  • Actin-Binding LIM Protein Family Member 3 4
  • Actin-Binding LIM Protein 3 3
  • HMFN1661 3
  • KIAA0843 4

External Ids for ABLIM3 Gene

Previous GeneCards Identifiers for ABLIM3 Gene

  • GC05P148549
  • GC05P148501
  • GC05P143667

Summaries for ABLIM3 Gene

Entrez Gene Summary for ABLIM3 Gene

  • This gene encodes a member of the actin-binding LIM (abLIM) family of proteins. These proteins are characterized by an N-terminal LIM domain and a C-terminal dematin-like domain. The encoded protein interacts with actin filaments and may be a component of adherens junctions in several cell types. A variant of this gene may be associated with pain sensitivity in male human patients. [provided by RefSeq, Sep 2016]

GeneCards Summary for ABLIM3 Gene

ABLIM3 (Actin Binding LIM Protein Family Member 3) is a Protein Coding gene. Among its related pathways are Developmental Biology and Netrin Signaling. GO annotations related to this gene include actin binding. An important paralog of this gene is ABLIM1.

UniProtKB/Swiss-Prot for ABLIM3 Gene

  • May act as scaffold protein. May stimulate ABRA activity and ABRA-dependent SRF transcriptional activity.

Gene Wiki entry for ABLIM3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ABLIM3 Gene

Genomics for ABLIM3 Gene

Regulatory Elements for ABLIM3 Gene

Enhancers for ABLIM3 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
GH05G149140 1.8 FANTOM5 Ensembl ENCODE dbSUPER 25.4 +1.0 1046 4.5 FOXA2 ARID4B SIN3A ZNF48 YY1 GLIS2 ZNF143 FOS KLF13 SP3 ABLIM3 SH3TC2 ADRB2 GC05M149047
GH05G149060 1.4 Ensembl ENCODE dbSUPER 12.4 -79.1 -79136 4.6 PKNOX1 ATF1 NFIB SIN3A ARID4B RAD21 GATA2 SCRT2 FOS MIXL1 SH3TC2 LOC255187 ABLIM3 GC05M149060 RNU6-732P MIR584
GH05G149162 1 ENCODE dbSUPER 15.4 +21.0 20974 1.5 ELF3 TAF1 CEBPG RARA YY1 FOSL1 NCOR1 EED FOS IKZF2 ABLIM3 AFAP1L1 ENSG00000253406 ENSG00000248647 CARMN IL17B SH3TC2 GC05M149047
GH05G149209 1.7 FANTOM5 Ensembl ENCODE dbSUPER 8.2 +72.4 72357 8.5 ZNF493 ZFP64 BMI1 GATA2 ZNF354C RCOR1 FOS ZNF263 ZNF654 ZNF680 AFAP1L1 HMGXB3 RPS20P4 RPL7P1 LOC102546294 TIGD6 ENSG00000253406 ENSG00000248647 ABLIM3 GC05M149047
GH05G149171 1.4 Ensembl ENCODE dbSUPER 9 +32.5 32454 5.1 ELF3 TBP FOXA2 ZFP64 ARID4B DMAP1 ZNF48 RARA FOS CREM AFAP1L1 ENSG00000253406 ENSG00000248647 ABLIM3 GC05M149047
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ABLIM3 on UCSC Golden Path with GeneCards custom track

Promoters for ABLIM3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000188735 417 1001 ARID4B SIN3A ZNF48 YY1 GLIS2 ZNF143 KLF13 SP3 SP5 REST

Genomic Location for ABLIM3 Gene

Chromosome:
5
Start:
149,141,483 bp from pter
End:
149,260,542 bp from pter
Size:
119,060 bases
Orientation:
Plus strand

Genomic View for ABLIM3 Gene

Genes around ABLIM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ABLIM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ABLIM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ABLIM3 Gene

Proteins for ABLIM3 Gene

  • Protein details for ABLIM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O94929-ABLM3_HUMAN
    Recommended name:
    Actin-binding LIM protein 3
    Protein Accession:
    O94929
    Secondary Accessions:
    • A8K121
    • Q19VH3
    • Q658S1
    • Q68CI5
    • Q9BV32

    Protein attributes for ABLIM3 Gene

    Size:
    683 amino acids
    Molecular mass:
    77802 Da
    Quaternary structure:
    • Directly interacts with F-actin and ABRA.
    SequenceCaution:
    • Sequence=BAA74866.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ABLIM3 Gene

    Alternative splice isoforms for ABLIM3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ABLIM3 Gene

Post-translational modifications for ABLIM3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ABLIM3 Gene

Domains & Families for ABLIM3 Gene

Gene Families for ABLIM3 Gene

Protein Domains for ABLIM3 Gene

Suggested Antigen Peptide Sequences for ABLIM3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ABLIM3: view

No data available for UniProtKB/Swiss-Prot for ABLIM3 Gene

Function for ABLIM3 Gene

Molecular function for ABLIM3 Gene

UniProtKB/Swiss-Prot Function:
May act as scaffold protein. May stimulate ABRA activity and ABRA-dependent SRF transcriptional activity.

Gene Ontology (GO) - Molecular Function for ABLIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003779 actin binding IEA --
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 ABLIM3: view
genes like me logo Genes that share phenotypes with ABLIM3: view

Animal Model Products

CRISPR Products

miRNA for ABLIM3 Gene

miRTarBase miRNAs that target ABLIM3

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ABLIM3 Gene

Localization for ABLIM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ABLIM3 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ABLIM3 gene
Compartment Confidence
cytoskeleton 5
nucleus 3
cytosol 3

Gene Ontology (GO) - Cellular Components for ABLIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001725 stress fiber IDA 22684256
GO:0005737 cytoplasm IEA --
GO:0030027 lamellipodium IDA 22684256
genes like me logo Genes that share ontologies with ABLIM3: view

Pathways & Interactions for ABLIM3 Gene

genes like me logo Genes that share pathways with ABLIM3: view

Pathways by source for ABLIM3 Gene

1 KEGG pathway for ABLIM3 Gene
1 Qiagen pathway for ABLIM3 Gene

Gene Ontology (GO) - Biological Process for ABLIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0007010 cytoskeleton organization IEA --
GO:0030032 lamellipodium assembly IMP 22684256
GO:0030036 actin cytoskeleton organization IEA --
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IEA --
genes like me logo Genes that share ontologies with ABLIM3: view

No data available for SIGNOR curated interactions for ABLIM3 Gene

Drugs & Compounds for ABLIM3 Gene

No Compound Related Data Available

Transcripts for ABLIM3 Gene

Unigene Clusters for ABLIM3 Gene

Actin binding LIM protein family, member 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for ABLIM3 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b · 13c ^ 14 ^ 15a · 15b · 15c ^ 16a · 16b ^ 17 ^
SP1: - - - - -
SP2: - - - - - - - -
SP3: - - - - -
SP4:
SP5: - - -
SP6:
SP7:

ExUns: 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24
SP1:
SP2: -
SP3:
SP4:
SP5:
SP6:
SP7:

Relevant External Links for ABLIM3 Gene

GeneLoc Exon Structure for
ABLIM3
ECgene alternative splicing isoforms for
ABLIM3

Expression for ABLIM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ABLIM3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ABLIM3 Gene

This gene is overexpressed in Liver (x4.9).

Protein differential expression in normal tissues from HIPED for ABLIM3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (27.8), Liver (10.3), and Heart (9.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ABLIM3 Gene



Protein tissue co-expression partners for ABLIM3 Gene

NURSA nuclear receptor signaling pathways regulating expression of ABLIM3 Gene:

ABLIM3

SOURCE GeneReport for Unigene cluster for ABLIM3 Gene:

Hs.49688

mRNA Expression by UniProt/SwissProt for ABLIM3 Gene:

O94929-ABLM3_HUMAN
Tissue specificity: Expressed predominantly in heart and brain.

Evidence on tissue expression from TISSUES for ABLIM3 Gene

  • Nervous system(4.7)
  • Liver(4.4)
  • Heart(4.3)
  • Blood(4.2)
  • Intestine(4.2)
  • Stomach(4.2)
genes like me logo Genes that share expression patterns with ABLIM3: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for ABLIM3 Gene

Orthologs for ABLIM3 Gene

This gene was present in the common ancestor of animals.

Orthologs for ABLIM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ABLIM3 35 34
  • 99.76 (n)
OneToOne
dog
(Canis familiaris)
Mammalia ABLIM3 35 34
  • 94.19 (n)
OneToOne
cow
(Bos Taurus)
Mammalia ABLIM3 35 34
  • 93.41 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ABLIM3 35
  • 92 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ablim3 34
  • 92 (n)
mouse
(Mus musculus)
Mammalia Ablim3 34 16 35
  • 91.84 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ABLIM3 35
  • 81 (a)
OneToOne
chicken
(Gallus gallus)
Aves ABLIM3 35 34
  • 82 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ABLIM3 35
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ablim3 34
  • 76.1 (n)
zebrafish
(Danio rerio)
Actinopterygii ABLIM3 (2 of 3) 35
  • 74 (a)
OneToMany
ablim3 35 35
  • 74 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005425 34
  • 52.46 (n)
fruit fly
(Drosophila melanogaster)
Insecta Unc-115a 34
  • 49.17 (n)
Species where no ortholog for ABLIM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ABLIM3 Gene

ENSEMBL:
Gene Tree for ABLIM3 (if available)
TreeFam:
Gene Tree for ABLIM3 (if available)

Paralogs for ABLIM3 Gene

Paralogs for ABLIM3 Gene

(6) SIMAP similar genes for ABLIM3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with ABLIM3: view

Variants for ABLIM3 Gene

Sequence variations from dbSNP and Humsavar for ABLIM3 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs386352274 Uncertain significance 149,247,895(+) GCCCT(A/G)CACAC reference, synonymous-codon
rs386352275 Uncertain significance 149,247,814(+) CTGAA(A/G)GAAGA reference, synonymous-codon
rs1000155921 -- 149,155,399(+) CAGAC(C/T)GCTTC intron-variant
rs1000155922 -- 149,240,841(+) TGAGT(C/T)ACCCC intron-variant
rs1000176739 -- 149,143,547(+) AAGAG(-/A)AAAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ABLIM3 Gene

Variant ID Type Subtype PubMed ID
dgv3190n106 CNV deletion 24896259
dgv3404e59 CNV duplication 20981092
esv1009293 CNV deletion 20482838
esv1067040 CNV insertion 17803354
esv1591742 CNV deletion 17803354
esv1941617 CNV deletion 18987734
esv2159994 CNV deletion 18987734
esv2319677 CNV deletion 18987734
esv2479942 CNV deletion 19546169
esv2599932 CNV deletion 19546169
esv2730903 CNV deletion 23290073
esv2730904 CNV deletion 23290073
esv2742645 CNV deletion 23290073
esv3566798 CNV deletion 23714750
esv3566799 CNV deletion 23714750
esv3570490 CNV loss 25503493
esv3575887 CNV gain 25503493
esv3607137 CNV gain 21293372
esv3607138 CNV gain 21293372
nsv328915 CNV deletion 16902084
nsv329799 CNV deletion 16902084
nsv517567 CNV gain 19592680
nsv830517 CNV gain 17160897

Variation tolerance for ABLIM3 Gene

Residual Variation Intolerance Score: 70.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.84; 48.01% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ABLIM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ABLIM3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ABLIM3 Gene

Disorders for ABLIM3 Gene

Relevant External Links for ABLIM3

Genetic Association Database (GAD)
ABLIM3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ABLIM3

No disorders were found for ABLIM3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ABLIM3 Gene

Publications for ABLIM3 Gene

  1. Two novel members of the ABLIM protein family, ABLIM-2 and -3, associate with STARS and directly bind F-actin. (PMID: 17194709) Barrientos T. … Frey N. (J. Biol. Chem. 2007) 3 4 64
  2. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  3. Actin binding LIM protein 3 (abLIM3). (PMID: 16328021) Krupp M. … Teufel A. (Int. J. Mol. Med. 2006) 3 22 64
  4. Expression profiling and differential screening between hepatoblastomas and the corresponding normal livers: identification of high expression of the PLK1 oncogene as a poor-prognostic indicator of hepatoblastomas. (PMID: 15221005) Yamada S. … Nakagawara A. (Oncogene 2004) 3 4 64
  5. 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 4 64

Products for ABLIM3 Gene

Sources for ABLIM3 Gene

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