Human Gene PLXDC1 (ENST00000315392.9_12) from GENCODE V47lift37
  Description: plexin domain containing 1 (from RefSeq NM_020405.5)
Gencode Transcript: ENST00000315392.9_12
Gencode Gene: ENSG00000161381.14_14
Transcript (Including UTRs)
   Position: hg19 chr17:37,219,566-37,307,890 Size: 88,325 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr17:37,224,093-37,307,690 Size: 83,598 Coding Exon Count: 14 

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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 (chr17:37,219,566-37,307,890)mRNA (may differ from genome)Protein (500 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PLDX1_HUMAN
DESCRIPTION: RecName: Full=Plexin domain-containing protein 1; AltName: Full=Tumor endothelial marker 3; AltName: Full=Tumor endothelial marker 7; Flags: Precursor;
FUNCTION: Plays a critical role in endothelial cell capillary morphogenesis (By similarity).
SUBUNIT: Interacts with NID1. May interact with CTTN.
SUBCELLULAR LOCATION: Isoform 1: Cell membrane; Single-pass type I membrane protein. Cell junction, tight junction. Note=Localized predominantly at the tight junctions of vascular endothelial cells and to a lesser extent at the luminal surface of vascular endothelial cells.
SUBCELLULAR LOCATION: Isoform 2: Secreted (Potential).
SUBCELLULAR LOCATION: Isoform 3: Secreted (Potential).
SUBCELLULAR LOCATION: Isoform 4: Cytoplasm (Potential).
TISSUE SPECIFICITY: Detected in endothelial cells from colorectal cancer, and in endothelial cells from primary cancers of the lung, liver, pancreas, breast and brain. Not detectable in endothelial cells from normal tissue. Expressed in fibrovascular membrane with increased expression in individuals with proliferative diabetic retinopathy.
PTM: N-glycosylated.
SIMILARITY: Belongs to the plexin family.

-  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: PLXDC1
Diseases sorted by gene-association score: endocardium disease (1)

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

+  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: 10.66 RPKM in Ovary
Total median expression: 156.12 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 -91.90200-0.460 Picture PostScript Text
3' UTR -1514.004527-0.334 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
IPR003659 - Plexin-like
IPR002165 - Plexin_repeat

Pfam Domains:
PF01437 - Plexin repeat

SCOP Domains:
103575 - Plexin repeat

ModBase Predicted Comparative 3D Structure on Q8IUK5
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

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

Biological Process:
GO:0001525 angiogenesis
GO:0021510 spinal cord development

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0005923 bicellular tight junction
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction
GO:0030425 dendrite
GO:0043025 neuronal cell body
GO:0043235 receptor complex


-  Descriptions from all associated GenBank mRNAs
  AF378753 - Homo sapiens tumor endothelial marker 3 precursor (TEM7) mRNA, complete cds.
AL833517 - Homo sapiens mRNA; cDNA DKFZp686F0937 (from clone DKFZp686F0937).
AF279144 - Homo sapiens tumor endothelial marker 7 precursor (TEM7) mRNA, complete cds.
AY704670 - Homo sapiens tumor endothelial marker 7-secreted 1 precursor (TEM7) mRNA, complete cds; alternatively spliced.
AY704671 - Homo sapiens tumor endothelial marker 7-secreted 2 precursor (TEM7) mRNA, complete cds; alternatively spliced.
BC036059 - Homo sapiens plexin domain containing 1, mRNA (cDNA clone MGC:33667 IMAGE:5298499), complete cds.
AY704672 - Homo sapiens tumor endothelial marker 7-intracellular precursor (TEM7) mRNA, complete cds; alternatively spliced.
AK127539 - Homo sapiens cDNA FLJ45632 fis, clone CHONS2001834, highly similar to Homo sapiens tumor endothelial marker 7 precursor (TEM7).
AK093589 - Homo sapiens cDNA FLJ36270 fis, clone THYMU2003046, highly similar to Plexin domain-containing protein 1 precursor.
AX748217 - Sequence 1742 from Patent EP1308459.
AK303699 - Homo sapiens cDNA FLJ58221 complete cds, highly similar to Plexin domain-containing protein 1 precursor.
EU832116 - Synthetic construct Homo sapiens clone HAIB:100067145; DKFZo008C0625 plexin domain containing 1 protein (PLXDC1) gene, encodes complete protein.
AK312999 - Homo sapiens cDNA, FLJ93462, highly similar to Homo sapiens plexin domain containing 1 (PLXDC1), mRNA.
EU832210 - Synthetic construct Homo sapiens clone HAIB:100067239; DKFZo004C0626 plexin domain containing 1 protein (PLXDC1) gene, encodes complete protein.
JD413904 - Sequence 394928 from Patent EP1572962.
AF070526 - Homo sapiens clone 24787 mRNA sequence.
JD222457 - Sequence 203481 from Patent EP1572962.
JD271525 - Sequence 252549 from Patent EP1572962.
JD165757 - Sequence 146781 from Patent EP1572962.
JD308771 - Sequence 289795 from Patent EP1572962.
JD445612 - Sequence 426636 from Patent EP1572962.
JD369334 - Sequence 350358 from Patent EP1572962.
JD077408 - Sequence 58432 from Patent EP1572962.
JD515415 - Sequence 496439 from Patent EP1572962.
JD309374 - Sequence 290398 from Patent EP1572962.
JD302154 - Sequence 283178 from Patent EP1572962.
JD515288 - Sequence 496312 from Patent EP1572962.
JD234877 - Sequence 215901 from Patent EP1572962.
JD362447 - Sequence 343471 from Patent EP1572962.
JD331682 - Sequence 312706 from Patent EP1572962.
JD362928 - Sequence 343952 from Patent EP1572962.
JD045137 - Sequence 26161 from Patent EP1572962.
JD499745 - Sequence 480769 from Patent EP1572962.
JD100573 - Sequence 81597 from Patent EP1572962.
JD136273 - Sequence 117297 from Patent EP1572962.
JD194910 - Sequence 175934 from Patent EP1572962.
JD136272 - Sequence 117296 from Patent EP1572962.
JD194909 - Sequence 175933 from Patent EP1572962.
JD328588 - Sequence 309612 from Patent EP1572962.
JD307974 - Sequence 288998 from Patent EP1572962.
JD295773 - Sequence 276797 from Patent EP1572962.
JD115976 - Sequence 97000 from Patent EP1572962.
JD390311 - Sequence 371335 from Patent EP1572962.
JD123487 - Sequence 104511 from Patent EP1572962.
JD378510 - Sequence 359534 from Patent EP1572962.
JD347300 - Sequence 328324 from Patent EP1572962.
JD149010 - Sequence 130034 from Patent EP1572962.
JD145782 - Sequence 126806 from Patent EP1572962.
JD109018 - Sequence 90042 from Patent EP1572962.
JD075143 - Sequence 56167 from Patent EP1572962.
JD094260 - Sequence 75284 from Patent EP1572962.
JD353543 - Sequence 334567 from Patent EP1572962.
JD437638 - Sequence 418662 from Patent EP1572962.
JD558887 - Sequence 539911 from Patent EP1572962.
JD431079 - Sequence 412103 from Patent EP1572962.
JD326945 - Sequence 307969 from Patent EP1572962.
JD101562 - Sequence 82586 from Patent EP1572962.
JD247825 - Sequence 228849 from Patent EP1572962.
JD084428 - Sequence 65452 from Patent EP1572962.
JD472327 - Sequence 453351 from Patent EP1572962.
JD323852 - Sequence 304876 from Patent EP1572962.
JD412088 - Sequence 393112 from Patent EP1572962.
JD337193 - Sequence 318217 from Patent EP1572962.
JD079461 - Sequence 60485 from Patent EP1572962.
JD283417 - Sequence 264441 from Patent EP1572962.
JD223827 - Sequence 204851 from Patent EP1572962.
JD482562 - Sequence 463586 from Patent EP1572962.
JD558868 - Sequence 539892 from Patent EP1572962.
JD559711 - Sequence 540735 from Patent EP1572962.
JD498339 - Sequence 479363 from Patent EP1572962.
JD344114 - Sequence 325138 from Patent EP1572962.
JD472642 - Sequence 453666 from Patent EP1572962.
JD199691 - Sequence 180715 from Patent EP1572962.
JD417320 - Sequence 398344 from Patent EP1572962.
JD465044 - Sequence 446068 from Patent EP1572962.
JD479096 - Sequence 460120 from Patent EP1572962.
JD543553 - Sequence 524577 from Patent EP1572962.
JD543552 - Sequence 524576 from Patent EP1572962.
JD251365 - Sequence 232389 from Patent EP1572962.
JD049524 - Sequence 30548 from Patent EP1572962.
JD090439 - Sequence 71463 from Patent EP1572962.
JD112819 - Sequence 93843 from Patent EP1572962.
JD437696 - Sequence 418720 from Patent EP1572962.
JD364905 - Sequence 345929 from Patent EP1572962.
JD473265 - Sequence 454289 from Patent EP1572962.
JD214859 - Sequence 195883 from Patent EP1572962.
JD342767 - Sequence 323791 from Patent EP1572962.
JD503025 - Sequence 484049 from Patent EP1572962.
JD052035 - Sequence 33059 from Patent EP1572962.
JD183000 - Sequence 164024 from Patent EP1572962.
JD163781 - Sequence 144805 from Patent EP1572962.
JD166372 - Sequence 147396 from Patent EP1572962.
JD156533 - Sequence 137557 from Patent EP1572962.
JD245579 - Sequence 226603 from Patent EP1572962.
JD247963 - Sequence 228987 from Patent EP1572962.
JD418959 - Sequence 399983 from Patent EP1572962.
JD242019 - Sequence 223043 from Patent EP1572962.
JD065553 - Sequence 46577 from Patent EP1572962.
JD245969 - Sequence 226993 from Patent EP1572962.
JD543576 - Sequence 524600 from Patent EP1572962.
JD369326 - Sequence 350350 from Patent EP1572962.
JD248386 - Sequence 229410 from Patent EP1572962.
JD444173 - Sequence 425197 from Patent EP1572962.
JD447176 - Sequence 428200 from Patent EP1572962.
JD514745 - Sequence 495769 from Patent EP1572962.
JD194956 - Sequence 175980 from Patent EP1572962.
JD201621 - Sequence 182645 from Patent EP1572962.
JD141116 - Sequence 122140 from Patent EP1572962.
JD173508 - Sequence 154532 from Patent EP1572962.
JD265010 - Sequence 246034 from Patent EP1572962.
JD194955 - Sequence 175979 from Patent EP1572962.
JD194954 - Sequence 175978 from Patent EP1572962.
JD194953 - Sequence 175977 from Patent EP1572962.
JD265009 - Sequence 246033 from Patent EP1572962.
JD495526 - Sequence 476550 from Patent EP1572962.
JD545151 - Sequence 526175 from Patent EP1572962.
JD110105 - Sequence 91129 from Patent EP1572962.
JD383933 - Sequence 364957 from Patent EP1572962.
JD446317 - Sequence 427341 from Patent EP1572962.
JD170850 - Sequence 151874 from Patent EP1572962.
JD446318 - Sequence 427342 from Patent EP1572962.
JD419766 - Sequence 400790 from Patent EP1572962.
JD419765 - Sequence 400789 from Patent EP1572962.
JD246496 - Sequence 227520 from Patent EP1572962.
JD421573 - Sequence 402597 from Patent EP1572962.
JD361185 - Sequence 342209 from Patent EP1572962.
JD344490 - Sequence 325514 from Patent EP1572962.
JD400999 - Sequence 382023 from Patent EP1572962.
JD491745 - Sequence 472769 from Patent EP1572962.
JD502872 - Sequence 483896 from Patent EP1572962.
JD437431 - Sequence 418455 from Patent EP1572962.
JD546699 - Sequence 527723 from Patent EP1572962.
JD042808 - Sequence 23832 from Patent EP1572962.
JD360749 - Sequence 341773 from Patent EP1572962.
JD171093 - Sequence 152117 from Patent EP1572962.
JD137555 - Sequence 118579 from Patent EP1572962.
JD040370 - Sequence 21394 from Patent EP1572962.
JD238669 - Sequence 219693 from Patent EP1572962.
JD170944 - Sequence 151968 from Patent EP1572962.
JD037916 - Sequence 18940 from Patent EP1572962.
JD311320 - Sequence 292344 from Patent EP1572962.
KU257674 - Homo sapiens tumor endothelial marker 7 precursor (TEM7) mRNA, partial cds.
JD384185 - Sequence 365209 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R7I8, ENST00000315392.1, ENST00000315392.2, ENST00000315392.3, ENST00000315392.4, ENST00000315392.5, ENST00000315392.6, ENST00000315392.7, ENST00000315392.8, NM_020405, PLDX1_HUMAN, Q5QCZ7, Q5QCZ8, Q5QCZ9, Q8IUK5, Q9HCT9, TEM3, TEM7, uc317puo.1, uc317puo.2
UCSC ID: ENST00000315392.9_12
RefSeq Accession: NM_020405.5
Protein: Q8IUK5 (aka PLDX1_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.