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Aliases for ATRAID Gene

Aliases for ATRAID Gene

  • All-Trans Retinoic Acid Induced Differentiation Factor 2 3 5
  • Apoptosis-Related Protein 3 2 3 4
  • C2orf28 3 4
  • APR-3 3 4
  • APR3 3 4
  • P18 3 4
  • All-Trans Retinoic Acid-Induced Differentiation Factor 3
  • Chromosome 2 Open Reading Frame 28 2
  • Apoptosis Related Protein APR-3 3
  • HSPC013 3
  • APR--3 3
  • PRO240 3

External Ids for ATRAID Gene

Previous HGNC Symbols for ATRAID Gene

  • C2orf28

Previous GeneCards Identifiers for ATRAID Gene

  • GC02P027435

Summaries for ATRAID Gene

Entrez Gene Summary for ATRAID Gene

  • This gene is thought to be involved in apoptosis, and may also be involved in hematopoietic development and differentiation. The use of alternative splice sites and promotors result in multiple transcript variants encoding different isoforms.[provided by RefSeq, Dec 2009]

GeneCards Summary for ATRAID Gene

ATRAID (All-Trans Retinoic Acid Induced Differentiation Factor) is a Protein Coding gene. Diseases associated with ATRAID include Limited Scleroderma and Cloacal Exstrophy. Among its related pathways are Apoptosis and Autophagy and NF-kappaB Signaling.

UniProtKB/Swiss-Prot for ATRAID Gene

  • Promotes osteoblast cell differentiation and terminal mineralization. Plays a role in inducing the cell cycle arrest via inhibiting CCND1 expression in all-trans-retinoic acid (ATRA) signal pathway.

Gene Wiki entry for ATRAID Gene

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

Genomics for ATRAID Gene

Regulatory Elements for ATRAID Gene

Enhancers for ATRAID 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
GH02G027320 1.8 FANTOM5 ENCODE dbSUPER 24.9 +110.7 110651 4.2 PKNOX1 FOXA2 MLX CREB3L1 ARNT ARID4B SIN3A YBX1 DMAP1 YY1 ATRAID ZNF512 ENSG00000235267 DNAJC5G SLC30A3 SNX17 ZNF513 SLC5A6 EMILIN1 KHK
GH02G027169 1.3 Ensembl ENCODE 22.6 -40.8 -40759 2.9 FOXA2 ATF1 MLX ARID4B DMAP1 ZNF48 YY1 ZNF143 ZNF263 SP5 ATRAID GTF3C2 TCF23 PRR30 PREB SLC5A6 ABHD1 CAD SLC30A3 DNAJC5G
GH02G027207 1.4 Ensembl ENCODE 17.3 -1.2 -1200 6.7 HDGF FOXA2 PKNOX1 MLX CREB3L1 ARID4B SIN3A DMAP1 ZBTB7B YY1 GTF3C2 ATRAID SNX17 CAD GPN1 NRBP1 MAPRE3 ENSG00000235267 ENSG00000236099
GH02G027216 1.1 ENCODE 17.1 +5.9 5906 2.8 HDGF PKNOX1 CREB3L1 AGO1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF512 ATRAID GTF3C2 MAPRE3 CAD DNAJC5G
GH02G027249 1.2 Ensembl ENCODE 15.5 +38.5 38537 1.3 ATF1 MLX AGO1 ARID4B DMAP1 ZNF2 ZNF48 ETS1 ZNF121 GLIS2 ATRAID DNAJC5G CAD
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ATRAID on UCSC Golden Path with GeneCards custom track

Promoters for ATRAID Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000114400 273 1801 PKNOX1 FOXA2 MLX CREB3L1 ARID4B SIN3A DMAP1 ZBTB7B YY1 ZNF143

Genomic Location for ATRAID Gene

Chromosome:
2
Start:
27,212,027 bp from pter
End:
27,217,178 bp from pter
Size:
5,152 bases
Orientation:
Plus strand

Genomic View for ATRAID Gene

Genes around ATRAID on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for ATRAID Gene

Proteins for ATRAID Gene

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

    Protein Symbol:
    Q6UW56-ARAID_HUMAN
    Recommended name:
    All-trans retinoic acid-induced differentiation factor
    Protein Accession:
    Q6UW56
    Secondary Accessions:
    • A8C1S2
    • A8K779
    • Q96FF6
    • Q96RT2
    • Q9Y2R7
    • Q9Y5L7

    Protein attributes for ATRAID Gene

    Size:
    229 amino acids
    Molecular mass:
    24747 Da
    Quaternary structure:
    • Interacts with NELL1; the interaction promotes osteoblastic differentiation and mineralization.
    SequenceCaution:
    • Sequence=AAD27770.1; Type=Frameshift; Positions=19; Evidence={ECO:0000305}; Sequence=AAD31317.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=AAD31317.2; Type=Frameshift; Positions=189; Evidence={ECO:0000305}; Sequence=AAH02846.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=AAH11006.3; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=AAH35850.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAX93173.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for ATRAID Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ATRAID Gene

Post-translational modifications for ATRAID Gene

  • Glycosylation at posLast=4444, Asn79, Asn157, and Asn168
  • Modification sites at PhosphoSitePlus

Other Protein References for ATRAID Gene

No data available for DME Specific Peptides for ATRAID Gene

Domains & Families for ATRAID Gene

Protein Domains for ATRAID Gene

Suggested Antigen Peptide Sequences for ATRAID Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

No data available for Gene Families and UniProtKB/Swiss-Prot for ATRAID Gene

Function for ATRAID Gene

Molecular function for ATRAID Gene

UniProtKB/Swiss-Prot Function:
Promotes osteoblast cell differentiation and terminal mineralization. Plays a role in inducing the cell cycle arrest via inhibiting CCND1 expression in all-trans-retinoic acid (ATRA) signal pathway.
UniProtKB/Swiss-Prot Induction:
Up-regulated by all-trans-retinoic acid (ATRA) in several tumor cell lines.

Gene Ontology (GO) - Molecular Function for ATRAID Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IPI 18388313
genes like me logo Genes that share ontologies with ATRAID: view
genes like me logo Genes that share phenotypes with ATRAID: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

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

Localization for ATRAID Gene

Subcellular locations from UniProtKB/Swiss-Prot for ATRAID Gene

Nucleus envelope. Cell membrane; Single-pass membrane protein. Note=Colocalizes with NELL1 on the nuclear envelope and the perinuclear region (PubMed:21723284).

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 ATRAID gene
Compartment Confidence
plasma membrane 5
nucleus 5
cytosol 2
lysosome 2

Gene Ontology (GO) - Cellular Components for ATRAID Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005635 nuclear envelope IDA,IEA 21723284
GO:0005765 lysosomal membrane IEA --
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with ATRAID: view

Pathways & Interactions for ATRAID Gene

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

Pathways by source for ATRAID Gene

3 Cell Signaling Technology pathways for ATRAID Gene

Gene Ontology (GO) - Biological Process for ATRAID Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010468 regulation of gene expression IDA 21723284
GO:0030154 cell differentiation IEA --
GO:0030501 positive regulation of bone mineralization IDA 21723284
GO:0033689 negative regulation of osteoblast proliferation IDA 21723284
GO:0045669 positive regulation of osteoblast differentiation IDA 21723284
genes like me logo Genes that share ontologies with ATRAID: view

No data available for SIGNOR curated interactions for ATRAID Gene

Drugs & Compounds for ATRAID Gene

No Compound Related Data Available

Transcripts for ATRAID Gene

Unigene Clusters for ATRAID Gene

All-trans retinoic acid-induced differentiation factor:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

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

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b · 7c
SP1: - - -
SP2: - -
SP3:
SP4:

Relevant External Links for ATRAID Gene

GeneLoc Exon Structure for
ATRAID
ECgene alternative splicing isoforms for
ATRAID

Expression for ATRAID Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ATRAID Gene

This gene is overexpressed in Urine (69.0).

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



Protein tissue co-expression partners for ATRAID Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ATRAID Gene:

ATRAID

SOURCE GeneReport for Unigene cluster for ATRAID Gene:

Hs.9527

mRNA Expression by UniProt/SwissProt for ATRAID Gene:

Q6UW56-ARAID_HUMAN
Tissue specificity: Weakly expressed in hematopoietic cell lines.

Evidence on tissue expression from TISSUES for ATRAID Gene

  • Kidney(4.4)
  • Muscle(4.4)
  • Blood(4.3)
  • Nervous system(4.3)
  • Thyroid gland(2)
genes like me logo Genes that share expression patterns with ATRAID: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for ATRAID Gene

Orthologs for ATRAID Gene

This gene was present in the common ancestor of chordates.

Orthologs for ATRAID Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ATRAID 34 35
  • 99.18 (n)
dog
(Canis familiaris)
Mammalia ATRAID 34 35
  • 87.63 (n)
cow
(Bos Taurus)
Mammalia C11H2orf28 34
  • 86.61 (n)
ATRAID 35
  • 70 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Atraid 34 16 35
  • 83.9 (n)
rat
(Rattus norvegicus)
Mammalia Atraid 34
  • 81.71 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ATRAID 35
  • 58 (a)
OneToOne
chicken
(Gallus gallus)
Aves ATRAID 35
  • 48 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia atraid 34
  • 55.21 (n)
zebrafish
(Danio rerio)
Actinopterygii atraid 34 35
  • 51.37 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 29 (a)
OneToOne
Species where no ortholog for ATRAID 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)
  • 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)
  • oppossum (Monodelphis domestica)
  • 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 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 ATRAID Gene

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

Paralogs for ATRAID Gene

(1) SIMAP similar genes for ATRAID Gene using alignment to 2 proteins:

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

No data available for Paralogs for ATRAID Gene

Variants for ATRAID Gene

Sequence variations from dbSNP and Humsavar for ATRAID Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000109313 -- 27,211,259(+) CTAAA(C/G)GTAAA intron-variant, upstream-variant-2KB
rs1000424545 -- 27,214,891(+) ACAGT(A/G)GCTAC intron-variant
rs1001449501 -- 27,213,931(+) TAATA(A/C)CTTTT intron-variant, upstream-variant-2KB
rs1001834084 -- 27,212,611(+) AGGTC(C/T)TGTTC intron-variant, upstream-variant-2KB
rs1001935191 -- 27,214,548(+) GAACT(G/T)TCTGT intron-variant

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

Variant ID Type Subtype PubMed ID
esv275571 CNV loss 21479260
nsv833603 CNV loss 17160897

Variation tolerance for ATRAID Gene

Residual Variation Intolerance Score: 56.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.35; 70.82% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ATRAID Gene

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

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

Disorders for ATRAID Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
limited scleroderma
  • crest syndrome
cloacal exstrophy
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for ATRAID

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ATRAID
genes like me logo Genes that share disorders with ATRAID: view

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

Publications for ATRAID Gene

  1. Apoptosis related protein 3, an ATRA-upregulated membrane protein arrests the cell cycle at G1/S phase by decreasing the expression of cyclin D1. (PMID: 17524364) Yu F. … Lu Z. (Biochem. Biophys. Res. Commun. 2007) 2 3 4 22 64
  2. NELL-1 binds to APR3 affecting human osteoblast proliferation and differentiation. (PMID: 21723284) Zou X. … Zhang X. (FEBS Lett. 2011) 2 3 4 64
  3. Identification of the distinct promoters for the two transcripts of apoptosis related protein 3 and their transcriptional regulation by NFAT and NFkappaB. (PMID: 17387583) Yang G. … Lu Z. (Mol. Cell. Biochem. 2007) 3 4 22 64
  4. 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
  5. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z. … Henzel W.J. (Protein Sci. 2004) 3 4 64

Products for ATRAID Gene

Sources for ATRAID Gene

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