Human Gene DDR1 (uc011fyr.2)
  Description: Homo sapiens discoidin domain receptor tyrosine kinase 1 (DDR1), transcript variant 3, mRNA.
RefSeq Summary (NM_001954): Receptor tyrosine kinases play a key role in the communication of cells with their microenvironment. These kinases are involved in the regulation of cell growth, differentiation and metabolism. The protein encoded by this gene belongs to a subfamily of tyrosine kinase receptors with homology to Dictyostelium discoideum protein discoidin I in their extracellular domain, and that are activated by various types of collagen. Expression of this protein is restricted to epithelial cells, particularly in the kidney, lung, gastrointestinal tract, and brain. In addition, it has been shown to be significantly overexpressed in several human tumors. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Feb 2011].
Transcript (Including UTRs)
   Position: hg19 chr6_dbb_hap3:2,150,268-2,162,051 Size: 11,784 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr6_dbb_hap3:2,150,609-2,161,191 Size: 10,583 Coding Exon Count: 16 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6_dbb_hap3:2,150,268-2,162,051)mRNA (may differ from genome)Protein (876 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
HGNCLynxMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): DDR1
CDC HuGE Published Literature: DDR1
Positive Disease Associations: Behcet Syndrome , Psoriasis , schizophrenia
Related Studies:
  1. Behcet Syndrome
    Elaine F Remmers et al. Nature genetics 2010, , Nature genetics. [PubMed 20622878]
  2. Psoriasis
    , , . [PubMed 0]
  3. Psoriasis
    , , . [PubMed 0]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: DDR1
Diseases sorted by gene-association score: breast cancer (4), pulmonary fibrosis, idiopathic (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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 -96.40341-0.283 Picture PostScript Text
3' UTR -324.58860-0.377 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
  Pfam Domains:
PF00069 - Protein kinase domain
PF00754 - F5/8 type C domain
PF07714 - Protein tyrosine kinase

SCOP Domains:
49785 - Galactose-binding domain-like
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on Q08345-2
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  LF210805 - JP 2014500723-A/18308: Polycomb-Associated Non-Coding RNAs.
AK291621 - Homo sapiens cDNA FLJ75091 complete cds, highly similar to Homo sapiens discoidin domain receptor family, member 1 (DDR1),transcript variant 2, mRNA.
BC008716 - Homo sapiens discoidin domain receptor tyrosine kinase 1, mRNA (cDNA clone MGC:8681 IMAGE:2964574), complete cds.
BC013400 - Homo sapiens discoidin domain receptor tyrosine kinase 1, mRNA (cDNA clone MGC:3909 IMAGE:2964574), complete cds.
L20817 - Homo sapiens tyrosine protein kinase (CAK) gene, complete cds.
L57508 - Homo sapiens Cak receptor kinase mRNA, complete cds.
BC070070 - Homo sapiens discoidin domain receptor tyrosine kinase 1, mRNA (cDNA clone MGC:87336 IMAGE:5262509), complete cds.
AB210021 - Homo sapiens mRNA for DDR1 variant protein, clone: fk11093.
L11315 - Homo sapiens receptor tyrosine kinase mRNA, complete cds.
AK294793 - Homo sapiens cDNA FLJ56035 complete cds, highly similar to Epithelial discoidin domain-containing receptor 1 precursor (EC 2.7.10.1).
AK295643 - Homo sapiens cDNA FLJ54797 complete cds, highly similar to Epithelial discoidin domain-containing receptor 1 precursor (EC 2.7.10.1).
Z29093 - H.sapiens EDDR1 gene for receptor tyrosine kinase.
X74979 - H.sapiens TRK E mRNA.
JD075742 - Sequence 56766 from Patent EP1572962.
EU826614 - Homo sapiens soluble DDR1 variant 2 (DDR1) mRNA, complete cds, alternatively spliced.
EU826613 - Homo sapiens soluble DDR1 variant 1 (DDR1) mRNA, complete cds, alternatively spliced.
CU687028 - Synthetic construct Homo sapiens gateway clone IMAGE:100022861 5' read DDR1 mRNA.
AB463012 - Synthetic construct DNA, clone: pF1KB2260, Homo sapiens DDR1 gene for discoidin domain receptor tyrosine kinase 1, without stop codon, in Flexi system.
KJ896529 - Synthetic construct Homo sapiens clone ccsbBroadEn_05923 DDR1 gene, encodes complete protein.
LF341301 - JP 2014500723-A/148804: Polycomb-Associated Non-Coding RNAs.
AK130776 - Homo sapiens cDNA FLJ27266 fis, clone TMS00356, highly similar to Epithelial discoidin domain receptor 1 precursor (EC 2.7.1.112).
LF341299 - JP 2014500723-A/148802: Polycomb-Associated Non-Coding RNAs.
AF353182 - Homo sapiens discoidin domain receptor DDR1d (DDR1) mRNA, partial cds, alternatively spliced.
AF353183 - Homo sapiens discoidin domain receptor DDR1e (DDR1) mRNA, partial cds, alternatively spliced.
LF341297 - JP 2014500723-A/148800: Polycomb-Associated Non-Coding RNAs.
JD052337 - Sequence 33361 from Patent EP1572962.
LF341296 - JP 2014500723-A/148799: Polycomb-Associated Non-Coding RNAs.
JD193042 - Sequence 174066 from Patent EP1572962.
JD174498 - Sequence 155522 from Patent EP1572962.
JD156428 - Sequence 137452 from Patent EP1572962.
JD218441 - Sequence 199465 from Patent EP1572962.
JD155244 - Sequence 136268 from Patent EP1572962.
JD112692 - Sequence 93716 from Patent EP1572962.
JD448039 - Sequence 429063 from Patent EP1572962.
JD460373 - Sequence 441397 from Patent EP1572962.
JD508253 - Sequence 489277 from Patent EP1572962.
JD200513 - Sequence 181537 from Patent EP1572962.
JD537942 - Sequence 518966 from Patent EP1572962.
JD405714 - Sequence 386738 from Patent EP1572962.
JD117888 - Sequence 98912 from Patent EP1572962.
JD353717 - Sequence 334741 from Patent EP1572962.
JD544426 - Sequence 525450 from Patent EP1572962.
JD434185 - Sequence 415209 from Patent EP1572962.
JD294504 - Sequence 275528 from Patent EP1572962.
JD555541 - Sequence 536565 from Patent EP1572962.
JD128731 - Sequence 109755 from Patent EP1572962.
JD387522 - Sequence 368546 from Patent EP1572962.
JD539743 - Sequence 520767 from Patent EP1572962.
JD470204 - Sequence 451228 from Patent EP1572962.
LF341295 - JP 2014500723-A/148798: Polycomb-Associated Non-Coding RNAs.
MA446382 - JP 2018138019-A/18308: Polycomb-Associated Non-Coding RNAs.
MA576878 - JP 2018138019-A/148804: Polycomb-Associated Non-Coding RNAs.
MA576876 - JP 2018138019-A/148802: Polycomb-Associated Non-Coding RNAs.
MA576874 - JP 2018138019-A/148800: Polycomb-Associated Non-Coding RNAs.
MA576873 - JP 2018138019-A/148799: Polycomb-Associated Non-Coding RNAs.
MA576872 - JP 2018138019-A/148798: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q08345 (Reactome details) participates in the following event(s):

R-HSA-2327738 DDR1 binds collagen type I, II, III, IV, V, XI fibrils
R-HSA-3000171 Non-integrin membrane-ECM interactions
R-HSA-1474244 Extracellular matrix organization

-  Other Names for This Gene
  Alternate Gene Symbols: CAK, EDDR1, NEP, NM_001954, NP_001945, NTRK4, PTK3A, Q08345-2, RTK6, TRKE, Z29093
UCSC ID: uc011fyr.2
RefSeq Accession: NM_001954
Protein: Q08345-2, splice isoform of Q08345

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: Z29093.1
exon count: 16CDS single in 3' UTR: no RNA size: 3841
ORF size: 2631CDS single in intron: no Alignment % ID: 99.82
txCdsPredict score: 5294.00frame shift in genome: no % Coverage: 99.61
has start codon: yes stop codon in genome: no # of Alignments: 6
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 299# 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.