Aliases for CALML4 Gene

Aliases for CALML4 Gene

  • Calmodulin Like 4 2 3 5
  • Serologically Defined Breast Cancer Antigen NY-BR-20 3 4
  • Calmodulin-Like Protein 4 3 4
  • NY-BR-20 2 3
  • Calmodulin-Like 4 2
  • MGC4809 2
  • CALML4 5

External Ids for CALML4 Gene

Previous GeneCards Identifiers for CALML4 Gene

  • GC15M066198
  • GC15M066270
  • GC15M068483
  • GC15M045313

Summaries for CALML4 Gene

GeneCards Summary for CALML4 Gene

CALML4 (Calmodulin Like 4) is a Protein Coding gene. Diseases associated with CALML4 include Pettigrew Syndrome and Breast Cancer. Among its related pathways are Tuberculosis and Inositol phosphate metabolism (KEGG). Gene Ontology (GO) annotations related to this gene include calcium ion binding. An important paralog of this gene is CALM2.

Additional gene information for CALML4 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CALML4 Gene

Genomics for CALML4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CALML4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH15J068203 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 600.7 +0.4 409 4.2 TEAD4 LEF1 IKZF1 POLR2A JUND ETV6 SP1 HDAC1 SOX6 EP300 CALML4 CLN6 HSALNG0106791 ENSG00000260007 PIAS1
GH15J068208 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 -4.0 -4020 2.9 CTCF ZBTB33 POLR2A ZIC2 PATZ1 REST ZNF740 EGR1 RUNX3 ZNF444 CALML4 CLN6 piR-41126-005 ENSG00000260007 lnc-CLN6-3
GH15J068197 Promoter 0.6 EPDnew 600.4 +8.6 8630 0.1 ZNF341 RBM22 POLR2A TFAP4 CALML4 HSALNG0106791 ENSG00000260007 PIAS1
GH15J068194 Promoter 0.3 EPDnew 600.4 +12.1 12089 0.1 CALML4 HSALNG0106791 ENSG00000260007 PIAS1
GH15J068193 Promoter 0.3 EPDnew 600.4 +12.2 12246 0.1 CALML4 HSALNG0106791 ENSG00000260007 PIAS1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CALML4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CALML4

Top Transcription factor binding sites by QIAGEN in the CALML4 gene promoter:
  • AP-1
  • CUTL1
  • GATA-1
  • STAT1
  • STAT1alpha
  • STAT1beta
  • STAT2
  • STAT3
  • STAT4
  • STAT5A

Genomic Locations for CALML4 Gene

Genomic Locations for CALML4 Gene
chr15:68,190,705-68,206,110
(GRCh38/hg38)
Size:
15,406 bases
Orientation:
Minus strand
chr15:68,483,043-68,498,448
(GRCh37/hg19)
Size:
15,406 bases
Orientation:
Minus strand

Genomic View for CALML4 Gene

Genes around CALML4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CALML4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CALML4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CALML4 Gene

Proteins for CALML4 Gene

  • Protein details for CALML4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96GE6-CALL4_HUMAN
    Recommended name:
    Calmodulin-like protein 4
    Protein Accession:
    Q96GE6
    Secondary Accessions:
    • B4DL15
    • F8W6Y4
    • Q6MZY3
    • Q6N048
    • Q9H286

    Protein attributes for CALML4 Gene

    Size:
    196 amino acids
    Molecular mass:
    21883 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAG48255.1; Type=Frameshift; Evidence={ECO:0000305}; Sequence=BAG59377.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for CALML4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CALML4 Gene

Post-translational modifications for CALML4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for CALML4 Gene

Domains & Families for CALML4 Gene

Gene Families for CALML4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for CALML4 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CALML4 Gene

GenScript: Design optimal peptide antigens:
  • Serologically defined breast cancer antigen NY-BR-20 (CALL4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96GE6

UniProtKB/Swiss-Prot:

CALL4_HUMAN :
  • Belongs to the calmodulin family.
Family:
  • Belongs to the calmodulin family.
genes like me logo Genes that share domains with CALML4: view

Function for CALML4 Gene

Phenotypes From GWAS Catalog for CALML4 Gene

Gene Ontology (GO) - Molecular Function for CALML4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IBA 21873635
GO:0030234 enzyme regulator activity IBA 21873635
genes like me logo Genes that share ontologies with CALML4: view
genes like me logo Genes that share phenotypes with CALML4: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CALML4

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CALML4 Gene

Localization for CALML4 Gene

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 CALML4 gene
Compartment Confidence
nucleus 3
cytosol 3
golgi apparatus 2
extracellular 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Golgi apparatus (2)
  • Nucleoplasm (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for CALML4 Gene

Pathways & Interactions for CALML4 Gene

genes like me logo Genes that share pathways with CALML4: view

Gene Ontology (GO) - Biological Process for CALML4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000226 microtubule cytoskeleton organization IBA 21873635
GO:0019722 calcium-mediated signaling IBA 21873635
GO:0050790 regulation of catalytic activity IEA --
genes like me logo Genes that share ontologies with CALML4: view

No data available for SIGNOR curated interactions for CALML4 Gene

Drugs & Compounds for CALML4 Gene

No Compound Related Data Available

Transcripts for CALML4 Gene

mRNA/cDNA for CALML4 Gene

4 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
8 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CALML4

Alternative Splicing Database (ASD) splice patterns (SP) for CALML4 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c · 5d · 5e
SP1: - -
SP2: -
SP3: - - -
SP4: - -
SP5: - - - -
SP6:

Relevant External Links for CALML4 Gene

GeneLoc Exon Structure for
CALML4

Expression for CALML4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CALML4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CALML4 Gene

This gene is overexpressed in Colon - Transverse (x8.0).

Protein differential expression in normal tissues from HIPED for CALML4 Gene

This gene is overexpressed in Plasma (27.3), Fetal gut (10.3), Liver (7.9), and Prostate (7.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CALML4 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CALML4

SOURCE GeneReport for Unigene cluster for CALML4 Gene:

Hs.709550

mRNA Expression by UniProt/SwissProt for CALML4 Gene:

Q96GE6-CALL4_HUMAN
Tissue specificity: Expressed in breast cancer cell lines.

Evidence on tissue expression from TISSUES for CALML4 Gene

  • Intestine(4.2)
genes like me logo Genes that share expression patterns with CALML4: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CALML4 Gene

Orthologs for CALML4 Gene

This gene was present in the common ancestor of animals.

Orthologs for CALML4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CALML4 30 31
  • 98.81 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia CALML4 30 31
  • 88.45 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia CALML4 30 31
  • 87.3 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Calml4 30 17 31
  • 86.06 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Calml4 30
  • 85.4 (n)
Oppossum
(Monodelphis domestica)
Mammalia CALML4 31
  • 76 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CALML4 31
  • 62 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CALML4 30 31
  • 68.85 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia CALML4 31
  • 65 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia calml4 30
  • 66.23 (n)
Zebrafish
(Danio rerio)
Actinopterygii calml4a 30 31
  • 67.54 (n)
OneToOne
Dr.15736 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG30378 31
  • 28 (a)
ManyToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 39 (a)
OneToOne
Species where no ortholog for CALML4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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 Vase (Ciona intestinalis)
  • 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 CALML4 Gene

ENSEMBL:
Gene Tree for CALML4 (if available)
TreeFam:
Gene Tree for CALML4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CALML4: view image

Paralogs for CALML4 Gene

(21) SIMAP similar genes for CALML4 Gene using alignment to 4 proteins:

  • CALL4_HUMAN
  • H3BM27_HUMAN
  • H3BM29_HUMAN
  • H3BS46_HUMAN
genes like me logo Genes that share paralogs with CALML4: view

Variants for CALML4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CALML4 Gene

SNP ID Clinical significance and condition Chr 15 pos Variation AA Info Type
rs772664987 Not Provided: not provided 68,194,022(-) TC/T FRAMESHIFT_VARIANT,NON_CODING_TRANSCRIPT_VARIANT
rs2280217 - p.Thr154Lys
rs3803381 - p.Arg28Cys

Additional dbSNP identifiers (rs#s) for CALML4 Gene

Structural Variations from Database of Genomic Variants (DGV) for CALML4 Gene

Variant ID Type Subtype PubMed ID
nsv1581 CNV insertion 18451855

Variation tolerance for CALML4 Gene

Residual Variation Intolerance Score: 65.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.23; 40.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CALML4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CALML4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CALML4 Gene

Disorders for CALML4 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CALML4 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
pettigrew syndrome
  • pgs
breast cancer
  • breast lobular carcinoma
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with CALML4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CALML4 Gene

Publications for CALML4 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  2. Humoral immunity to human breast cancer: antigen definition and quantitative analysis of mRNA expression. (PMID: 12747765) Scanlan MJ … Old LJ (Cancer immunity 2001) 3 4
  3. ΔNp63α Suppresses TGFB2 Expression and RHOA Activity to Drive Cell Proliferation in Squamous Cell Carcinomas. (PMID: 30232004) Abraham CG … Espinosa JM (Cell reports 2018) 3
  4. Common genetic variation and antidepressant efficacy in major depressive disorder: a meta-analysis of three genome-wide pharmacogenetic studies. (PMID: 23377640) GENDEP Investigators … STAR*D Investigators (The American journal of psychiatry 2013) 3
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3

Products for CALML4 Gene

Sources for CALML4 Gene