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Aliases for CARF Gene

Aliases for CARF Gene

  • Calcium Responsive Transcription Factor 2 3
  • Calcium-Response Factor 2 3 4
  • Amyotrophic Lateral Sclerosis 2 Chromosomal Region Candidate Gene 8 Protein 3 4
  • Amyotrophic Lateral Sclerosis 2 (Juvenile) Chromosome Region, Candidate 8 2 3
  • Testis Development Protein NYD-SP24 3 4
  • ALS2CR8 3 4
  • Calcium-Responsive Transcription Factor 3
  • NYD-SP24 3
  • ALS2CR8, 6
  • CARF 4

External Ids for CARF Gene

Previous HGNC Symbols for CARF Gene

  • ALS2CR8

Previous GeneCards Identifiers for CARF Gene

  • GC04P185045
  • GC04P184950
  • GC04P185061
  • GC04P184740
  • GC04P184602
  • GC02P203777

Summaries for CARF Gene

GeneCards Summary for CARF Gene

CARF (Calcium Responsive Transcription Factor) is a Protein Coding gene. Diseases associated with CARF include lateral sclerosis. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity.

UniProtKB/Swiss-Prot for CARF Gene

  • Acts as a transcriptional activator that mediates the calcium- and neuron-selective induction of BDNF exon III transcription. Binds to the consensus calcium-response element CaRE1 5-CTATTTCGAG-3 sequence.

Gene Wiki entry for CARF Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CARF Gene

Genomics for CARF Gene

Genomic Location for CARF Gene

Start:
202,912,214 bp from pter
End:
202,987,063 bp from pter
Size:
74,850 bases
Orientation:
Plus strand

Genomic View for CARF Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CARF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CARF Gene

No data available for Regulatory Elements for CARF Gene

Proteins for CARF Gene

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

    Protein Symbol:
    Q8N187-CARTF_HUMAN
    Recommended name:
    Calcium-responsive transcription factor
    Protein Accession:
    Q8N187
    Secondary Accessions:
    • B4E1W7
    • G3V1K7
    • Q8ND29
    • Q8WXC0
    • Q96J78
    • Q96Q38
    • Q96Q39
    • Q9H712

    Protein attributes for CARF Gene

    Size:
    725 amino acids
    Molecular mass:
    80698 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB15088.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB69018.1; Type=Frameshift; Positions=715; Evidence={ECO:0000305};

    Alternative splice isoforms for CARF Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CARF Gene

Proteomics data for CARF Gene at MOPED

Post-translational modifications for CARF Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for CARF Gene

Domains for CARF Gene

Protein Domains for CARF Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q8N187

UniProtKB/Swiss-Prot:

CARTF_HUMAN :
  • Q8N187
Domain:
  • The N-terminus is necessary for DNA-binding. The C-terminus is necessary for transcriptional activation (PubMed:11832226).
genes like me logo Genes that share domains with CARF: view

No data available for Gene Families and Suggested Antigen Peptide Sequences for CARF Gene

Function for CARF Gene

Molecular function for CARF Gene

UniProtKB/Swiss-Prot Function: Acts as a transcriptional activator that mediates the calcium- and neuron-selective induction of BDNF exon III transcription. Binds to the consensus calcium-response element CaRE1 5-CTATTTCGAG-3 sequence.

Gene Ontology (GO) - Molecular Function for CARF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IEA --
GO:0001077 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription IEA --
GO:0003677 DNA binding IDA 11832226
GO:0003700 sequence-specific DNA binding transcription factor activity IDA 11832226
genes like me logo Genes that share ontologies with CARF: view

Phenotypes for CARF Gene

genes like me logo Genes that share phenotypes with CARF: view

Animal Models for CARF Gene

MGI Knock Outs for CARF:

miRNA for CARF Gene

miRTarBase miRNAs that target CARF

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for CARF Gene

Localization for CARF Gene

Subcellular locations from UniProtKB/Swiss-Prot for CARF Gene

Gene Ontology (GO) - Cellular Components for CARF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
GO:0005654 nucleoplasm IEA --
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with CARF: view

No data available for Subcellular locations from COMPARTMENTS for CARF Gene

Pathways for CARF Gene

SuperPathways for CARF Gene

No Data Available

Interacting Proteins for CARF Gene

Gene Ontology (GO) - Biological Process for CARF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated --
GO:0035865 cellular response to potassium ion IDA 22174809
GO:0045944 positive regulation of transcription from RNA polymerase II promoter --
GO:0061400 positive regulation of transcription from RNA polymerase II promoter in response to calcium ion IDA 11832226
genes like me logo Genes that share ontologies with CARF: view

No data available for Pathways by source for CARF Gene

Compounds for CARF Gene

(1) Novoseek inferred chemical compound relationships for CARF Gene

Compound -log(P) Hits PubMed IDs
calcium 37 5
genes like me logo Genes that share compounds with CARF: view

Transcripts for CARF Gene

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

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b · 9c ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16 ^
SP1: - - - - - - -
SP2: - - -
SP3: - - - - - - - -
SP4: - - - -
SP5: - - - - - - - - -
SP6: - - - - - -
SP7: - - - -
SP8: - - - - - - -
SP9: - - - -
SP10: - - - - -
SP11: - - - - - - -
SP12: - - - - -
SP13: - -

ExUns: 17 ^ 18 ^ 19 ^ 20
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:

Relevant External Links for CARF Gene

GeneLoc Exon Structure for
CARF
ECgene alternative splicing isoforms for
CARF

Expression for CARF Gene

mRNA expression in normal human tissues for CARF Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for CARF Gene

genes like me logo Genes that share expressions with CARF: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for CARF Gene

Orthologs for CARF Gene

This gene was present in the common ancestor of chordates.

Orthologs for CARF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ALS2CR8 35
  • 99.45 (n)
  • 98.76 (a)
ALS2CR8 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CARF 35
  • 89.43 (n)
  • 84.81 (a)
CARF 36
  • 82 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ALS2CR8 35
  • 90.98 (n)
  • 87.57 (a)
CARF 36
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Carf 35
  • 82.73 (n)
  • 75.04 (a)
Carf 16
Carf 36
  • 75 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CARF 36
  • 71 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CARF 36
  • 70 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Carf 35
  • 81.72 (n)
  • 79.07 (a)
chicken
(Gallus gallus)
Aves ALS2CR8 35
  • 72.57 (n)
  • 68.21 (a)
CARF 36
  • 66 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia carf 35
  • 62.66 (n)
  • 55.78 (a)
zebrafish
(Danio rerio)
Actinopterygii carf 35
  • 57.52 (n)
  • 53.97 (a)
carf 36
  • 45 (a)
OneToOne
Species with no ortholog for CARF:
  • 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)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • 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 CARF Gene

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

Paralogs for CARF Gene

No data available for Paralogs for CARF Gene

Variants for CARF Gene

Sequence variations from dbSNP and Humsavar for CARF Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs1351825 -- 202,985,744(+) GTTAC(C/G)TCTCA utr-variant-3-prime
rs1351826 -- 202,985,785(+) TAGCT(A/G)TTTCA utr-variant-3-prime
rs1541853 -- 202,970,454(-) GTAAG(G/T)AATCA intron-variant
rs2052944 -- 202,969,678(-) TTCCC(C/G)TAGAT intron-variant
rs2163248 -- 202,955,052(-) AAATT(A/T)AAAAA intron-variant, upstream-variant-2KB

Relevant External Links for CARF Gene

HapMap Linkage Disequilibrium report
CARF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for CARF Gene

Disorders for CARF Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for CARF Gene including...

Search for CARF Gene in MalaCards »
genes like me logo Genes that share disorders with CARF: view

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

Publications for CARF Gene

  1. A calcium-responsive transcription factor, CaRF, that regulates neuronal activity-dependent expression of BDNF. (PMID: 11832226) Tao X. … Greenberg M.E. (Neuron 2002) 2 3 4 23
  2. A gene encoding a putative GTPase regulator is mutated in familial amyotrophic lateral sclerosis 2. (PMID: 11586298) Hadano S. … Ikeda J.-E. (Nat. Genet. 2001) 2 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. 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
  5. 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

Products for CARF Gene

Sources for CARF Gene

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