Human Gene ATRAID (uc002rjf.3)
  Description: Homo sapiens all-trans retinoic acid-induced differentiation factor (ATRAID), transcript variant 2, mRNA.
RefSeq Summary (NM_001170795): 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]. Sequence Note:.
Transcript (Including UTRs)
   Position: hg19 chr2:27,434,899-27,440,046 Size: 5,148 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr2:27,435,072-27,439,816 Size: 4,745 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:27,434,899-27,440,046)mRNA (may differ from genome)Protein (229 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMalacardsMGI
neXtProtPubMedTreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ARAID_HUMAN
DESCRIPTION: RecName: Full=All-trans retinoic acid-induced differentiation factor; AltName: Full=Apoptosis-related protein 3; Short=APR-3; AltName: Full=p18; Flags: Precursor;
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.
SUBUNIT: Interacts with NELL1; the interaction promotes osteoblastic differentiation and mineralization.
SUBCELLULAR LOCATION: Nucleus envelope. Cell membrane; Single-pass membrane protein. Note=Colocalizes with NELL1 on the nuclear envelope and the perinuclear region.
TISSUE SPECIFICITY: Weakly expressed in hematopoietic cell lines.
INDUCTION: Up-regulated by all-trans-retinoic acid (ATRA) in several tumor cell lines.
SIMILARITY: Contains 1 EGF-like domain.
SEQUENCE CAUTION: Sequence=AAD27770.1; Type=Frameshift; Positions=19; Sequence=AAD31317.2; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=AAD31317.2; Type=Frameshift; Positions=189; Sequence=AAH02846.2; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=AAH11006.3; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=AAH35850.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAX93173.1; Type=Erroneous gene model prediction;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: ATRAID
Diseases sorted by gene-association score: cervical squamous cell carcinoma (3), cloacal exstrophy (2), limited scleroderma (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 146.72 RPKM in Testis
Total median expression: 3976.02 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -76.30173-0.441 Picture PostScript Text
3' UTR -61.80230-0.269 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000742 - EG-like_dom
IPR013032 - EGF-like_CS

Pfam Domains:
PF12661 - Human growth factor-like EGF

ModBase Predicted Comparative 3D Structure on Q6UW56
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
      
      
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding

Biological Process:
GO:0010468 regulation of gene expression
GO:0030154 cell differentiation
GO:0030501 positive regulation of bone mineralization
GO:0033689 negative regulation of osteoblast proliferation
GO:0045669 positive regulation of osteoblast differentiation
GO:1903363 negative regulation of cellular protein catabolic process

Cellular Component:
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005765 lysosomal membrane
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AB009017 - Homo sapiens mRNA for hypothetical protein, complete cds.
AF077037 - Homo sapiens HSPC013 mRNA, complete cds.
BC011006 - Homo sapiens chromosome 2 open reading frame 28, mRNA (cDNA clone IMAGE:4103408), partial cds.
AY358968 - Homo sapiens clone DNA34387 APR--3 (UNQ214) mRNA, complete cds.
AF144055 - Homo sapiens apoptosis related protein APR-3 mRNA, complete cds.
AF275744 - Homo sapiens p18 protein (p18) mRNA, complete cds.
AK291894 - Homo sapiens cDNA FLJ75748 complete cds.
JD057511 - Sequence 38535 from Patent EP1572962.
BC002846 - Homo sapiens chromosome 2 open reading frame 28, mRNA (cDNA clone IMAGE:3635746), partial cds.
BC035850 - Homo sapiens chromosome 2 open reading frame 28, mRNA (cDNA clone MGC:45977 IMAGE:5753421), complete cds.
BC021237 - Homo sapiens chromosome 2 open reading frame 28, mRNA (cDNA clone MGC:15159 IMAGE:4303513), complete cds.
JD240291 - Sequence 221315 from Patent EP1572962.
JD307375 - Sequence 288399 from Patent EP1572962.
KJ893899 - Synthetic construct Homo sapiens clone ccsbBroadEn_03293 C2orf28 gene, encodes complete protein.
JD328532 - Sequence 309556 from Patent EP1572962.
JD412481 - Sequence 393505 from Patent EP1572962.
JD263249 - Sequence 244273 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8C1S2, A8K779, APR3, ARAID_HUMAN, C2orf28, HSPC013, NM_001170795, NP_001164266, Q6UW56, Q96FF6, Q96RT2, Q9Y2R7, Q9Y5L7, UNQ214/PRO240
UCSC ID: uc002rjf.3
RefSeq Accession: NM_001170795
Protein: Q6UW56 (aka ARAID_HUMAN)
CCDS: CCDS1741.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001170795.1
exon count: 7CDS single in 3' UTR: no RNA size: 958
ORF size: 855CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1810.00frame shift in genome: no % Coverage: 97.91
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.