Human Gene NDRG2 (ENST00000556147.6_11) from GENCODE V47lift37
  Description: NDRG family member 2, transcript variant 15 (from RefSeq NM_001320329.2)
Gencode Transcript: ENST00000556147.6_11
Gencode Gene: ENSG00000165795.25_18
Transcript (Including UTRs)
   Position: hg19 chr14:21,484,931-21,493,220 Size: 8,290 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chr14:21,485,755-21,491,474 Size: 5,720 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:21,484,931-21,493,220)mRNA (may differ from genome)Protein (371 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NDRG2_HUMAN
DESCRIPTION: RecName: Full=Protein NDRG2; AltName: Full=N-myc downstream-regulated gene 2 protein; AltName: Full=Protein Syld709613;
FUNCTION: Contributes to the regulation of the Wnt signaling pathway. Down-regulates CTNNB1-mediated transcriptional activation of target genes, such as CCND1, and may thereby act as tumor suppressor. May be involved in dendritic cell and neuron differentiation.
SUBUNIT: Interacts with CTNNB1.
INTERACTION: P03372:ESR1; NbExp=2; IntAct=EBI-3895741, EBI-78473;
SUBCELLULAR LOCATION: Cytoplasm. Cytoplasm, perinuclear region. Cell projection, growth cone (By similarity). Note=In neurons, seems to concentrate at axonal growth cone. Perinuclear in neurons (By similarity).
TISSUE SPECIFICITY: Highly expressed in brain, heart, skeletal muscle and salivary gland, and moderately in kidney and liver. Expressed in dendritic cells, but not in other blood cells. Expression levels are low in pancreatic and liver cancer tissues; absent in meningioma. Expressed in low-grade gliomas but present at low levels in glioblastoma. Isoform 1 and isoform 2 are present in brain neurons and up-regulated in Alzheimer disease (at protein level).
DEVELOPMENTAL STAGE: Specifically expressed during dendritic cell differentiation (in vitro). Expression is low in fetal brain and increases during brain postnatal development.
SIMILARITY: Belongs to the NDRG family.
CAUTION: Has some similarity to hydrolases, but lacks the conserved Ser-His-Asp catalytic triad. Has no hydrolase activity towards p-nitrophenylbutyrate (in vitro).
SEQUENCE CAUTION: Sequence=BAA86562.1; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=CAD62350.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/NDRG2ID41513ch14q11.html";

-  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: NDRG2
Diseases sorted by gene-association score: glioblastoma (5), charcot-marie-tooth disease, type 4d (1), neuropathy, congenital hypomyelinating (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: 374.31 RPKM in Brain - Amygdala
Total median expression: 6248.23 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 -460.401038-0.444 Picture PostScript Text
3' UTR -334.10824-0.405 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
IPR004142 - Ndr

Pfam Domains:
PF03096 - Ndr family

SCOP Domains:
53474 - alpha/beta-Hydrolases

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2XMQ - X-ray MuPIT 2XMR - X-ray MuPIT 2XMS - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UN36
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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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005515 protein binding

Biological Process:
GO:0001818 negative regulation of cytokine production
GO:0007165 signal transduction
GO:0007275 multicellular organism development
GO:0007399 nervous system development
GO:0010574 regulation of vascular endothelial growth factor production
GO:0016055 Wnt signaling pathway
GO:0021762 substantia nigra development
GO:0030154 cell differentiation
GO:0048662 negative regulation of smooth muscle cell proliferation
GO:0070373 negative regulation of ERK1 and ERK2 cascade
GO:0090361 regulation of platelet-derived growth factor production

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005829 cytosol
GO:0030426 growth cone
GO:0042995 cell projection
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK293514 - Homo sapiens cDNA FLJ55190 complete cds, highly similar to Protein NDRG2.
LF210049 - JP 2014500723-A/17552: Polycomb-Associated Non-Coding RNAs.
AF304051 - Homo sapiens NDR1-related protein NDR2 (NDR2) mRNA, complete cds.
AK130029 - Homo sapiens cDNA FLJ26519 fis, clone KDN07975, highly similar to NDRG2 protein.
LF214011 - JP 2014500723-A/21514: Polycomb-Associated Non-Coding RNAs.
BC013209 - Homo sapiens NDRG family member 2, mRNA (cDNA clone IMAGE:4156252).
BX647091 - Homo sapiens mRNA; cDNA DKFZp686B02256 (from clone DKFZp686B02256).
CR749252 - Homo sapiens mRNA; cDNA DKFZp781G1938 (from clone DKFZp781G1938).
BX647748 - Homo sapiens mRNA; cDNA DKFZp779F191 (from clone DKFZp779F191).
BC010458 - Homo sapiens NDRG family member 2, mRNA (cDNA clone MGC:16914 IMAGE:4215141), complete cds.
BC011240 - Homo sapiens NDRG family member 2, mRNA (cDNA clone MGC:16913 IMAGE:4153602), complete cds.
AK098388 - Homo sapiens cDNA FLJ25522 fis, clone CBR06902.
AK096999 - Homo sapiens cDNA FLJ39680 fis, clone SMINT2010084, highly similar to Protein NDRG2.
AK090657 - Homo sapiens cDNA FLJ33338 fis, clone BRACE2001445, highly similar to Mus musculus mRNA for Ndr1 related protein Ndr2.
AX746561 - Sequence 86 from Patent EP1308459.
AK057843 - Homo sapiens cDNA FLJ25114 fis, clone CBR05716, highly similar to Mus musculus mRNA for Ndr1 related protein Ndr2.
AK057847 - Homo sapiens cDNA FLJ25118 fis, clone CBR05765, highly similar to Mus musculus mRNA for Ndr1 related protein Ndr2.
AB033074 - Homo sapiens KIAA1248 mRNA for KIAA1248 protein.
AK096214 - Homo sapiens cDNA FLJ38895 fis, clone NOVAR2000038.
AL136574 - Homo sapiens mRNA; cDNA DKFZp761J1923 (from clone DKFZp761J1923).
AF159092 - Homo sapiens syld709613 protein (SYLD) mRNA, complete cds.
BC093038 - Homo sapiens NDRG family member 2, mRNA (cDNA clone MGC:110955 IMAGE:4811718), complete cds.
AK024521 - Homo sapiens cDNA: FLJ20868 fis, clone ADKA02265.
BX248031 - human full-length cDNA clone CS0DC015YM23 of Neuroblastoma of Homo sapiens (human).
BX247987 - human full-length cDNA clone CS0DF035YK04 of Fetal brain of Homo sapiens (human).
JD498606 - Sequence 479630 from Patent EP1572962.
JD462954 - Sequence 443978 from Patent EP1572962.
JD211367 - Sequence 192391 from Patent EP1572962.
JD385306 - Sequence 366330 from Patent EP1572962.
JD279203 - Sequence 260227 from Patent EP1572962.
JD090687 - Sequence 71711 from Patent EP1572962.
LF334365 - JP 2014500723-A/141868: Polycomb-Associated Non-Coding RNAs.
JD422021 - Sequence 403045 from Patent EP1572962.
LF334366 - JP 2014500723-A/141869: Polycomb-Associated Non-Coding RNAs.
LF210051 - JP 2014500723-A/17554: Polycomb-Associated Non-Coding RNAs.
JD348716 - Sequence 329740 from Patent EP1572962.
JD199614 - Sequence 180638 from Patent EP1572962.
JD126302 - Sequence 107326 from Patent EP1572962.
JD439656 - Sequence 420680 from Patent EP1572962.
AF087872 - Homo sapiens cytoplasmic protein Ndr1 mRNA, complete cds.
JD444061 - Sequence 425085 from Patent EP1572962.
JD382517 - Sequence 363541 from Patent EP1572962.
JD507646 - Sequence 488670 from Patent EP1572962.
JD507645 - Sequence 488669 from Patent EP1572962.
JD475963 - Sequence 456987 from Patent EP1572962.
KJ902952 - Synthetic construct Homo sapiens clone ccsbBroadEn_12346 NDRG2 gene, encodes complete protein.
KJ906277 - Synthetic construct Homo sapiens clone ccsbBroadEn_15947 NDRG2 gene, encodes complete protein.
AB385441 - Synthetic construct DNA, clone: pF1KA1248, Homo sapiens NDRG2 gene for NDRG family member 2, complete cds, without stop codon, in Flexi system.
AM392671 - Synthetic construct Homo sapiens clone IMAGE:100001685 for hypothetical protein (NDRG2 gene).
CU679725 - Synthetic construct Homo sapiens gateway clone IMAGE:100017089 5' read NDRG2 mRNA.
JD238037 - Sequence 219061 from Patent EP1572962.
MA449588 - JP 2018138019-A/21514: Polycomb-Associated Non-Coding RNAs.
MA445626 - JP 2018138019-A/17552: Polycomb-Associated Non-Coding RNAs.
MA569942 - JP 2018138019-A/141868: Polycomb-Associated Non-Coding RNAs.
MA569943 - JP 2018138019-A/141869: Polycomb-Associated Non-Coding RNAs.
MA445628 - JP 2018138019-A/17554: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KUE3, B4DE86, B7WP11, B7WPD5, D3DS07, D3DS10, ENST00000556147.1, ENST00000556147.2, ENST00000556147.3, ENST00000556147.4, ENST00000556147.5, KIAA1248, NDRG2_HUMAN, NM_001320329, Q567T1, Q68DW2, Q86U08, Q86U46, Q96FD3, Q96FT0, Q96JU0, Q96PN0, Q9BQH5, Q9ULH2, Q9UN36, SYLD, uc325igj.1, uc325igj.2
UCSC ID: ENST00000556147.6_11
RefSeq Accession: NM_001320329.2
Protein: Q9UN36 (aka NDRG2_HUMAN or NDR2_HUMAN)

-  Gene Model Information
  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.