Human Gene LDLRAD4 (uc002ksb.3)
  Description: Homo sapiens low density lipoprotein receptor class A domain containing 4 (LDLRAD4), transcript variant a2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr18:13,218,729-13,652,753 Size: 434,025 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr18:13,387,722-13,645,656 Size: 257,935 Coding Exon Count: 4 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:13,218,729-13,652,753)mRNA (may differ from genome)Protein (288 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIOMIM
PubMedUniProtKBBioGrid 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


-  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: 7.80 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 130.15 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 -340.84725-0.470 Picture PostScript Text
3' UTR -2092.547097-0.295 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:
PF00057 - Low-density lipoprotein receptor domain class A

SCOP Domains:
57424 - LDL receptor-like module

ModBase Predicted Comparative 3D Structure on O15165-2
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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 Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BC030199 - Homo sapiens chromosome 18 open reading frame 1, mRNA (cDNA clone MGC:34709 IMAGE:5199354), complete cds.
AF009424 - Homo sapiens clone 22 mRNA, alternative splice variant alpha-1, complete cds.
AF009425 - Homo sapiens clone 22 mRNA, alternative splicing variant alpha-2, complete cds.
AX776015 - Sequence 285 from Patent WO03048202.
HQ447439 - Synthetic construct Homo sapiens clone IMAGE:100070767; CCSB015036_01 chromosome 18 open reading frame 1 (C18orf1) gene, encodes complete protein.
KJ890801 - Synthetic construct Homo sapiens clone ccsbBroadEn_00195 C18orf1 gene, encodes complete protein.
CU688834 - Synthetic construct Homo sapiens gateway clone IMAGE:100022634 5' read C18orf1 mRNA.
AK055028 - Homo sapiens cDNA FLJ30466 fis, clone BRAWH1000001, moderately similar to Homo sapiens PMEPA1 protein (PMEPA1) mRNA.
BC066971 - Homo sapiens chromosome 18 open reading frame 1, mRNA (cDNA clone MGC:87556 IMAGE:4794097), complete cds.
AK291574 - Homo sapiens cDNA FLJ75461 complete cds.
AF009426 - Homo sapiens clone 22 mRNA, alternative splice variant beta-1, complete cds.
AF009427 - Homo sapiens clone 22 mRNA, alternative splice variant beta-2, complete cds.
KJ901309 - Synthetic construct Homo sapiens clone ccsbBroadEn_10703 C18orf1 gene, encodes complete protein.
BC029958 - Homo sapiens chromosome 18 open reading frame 1, mRNA (cDNA clone IMAGE:5168288).
LF211084 - JP 2014500723-A/18587: Polycomb-Associated Non-Coding RNAs.
JD241486 - Sequence 222510 from Patent EP1572962.
JD073805 - Sequence 54829 from Patent EP1572962.
JD347774 - Sequence 328798 from Patent EP1572962.
JD154740 - Sequence 135764 from Patent EP1572962.
JD221099 - Sequence 202123 from Patent EP1572962.
JD303477 - Sequence 284501 from Patent EP1572962.
LF343876 - JP 2014500723-A/151379: Polycomb-Associated Non-Coding RNAs.
JD061774 - Sequence 42798 from Patent EP1572962.
LF343877 - JP 2014500723-A/151380: Polycomb-Associated Non-Coding RNAs.
JD346862 - Sequence 327886 from Patent EP1572962.
LF343878 - JP 2014500723-A/151381: Polycomb-Associated Non-Coding RNAs.
JD226377 - Sequence 207401 from Patent EP1572962.
JD241020 - Sequence 222044 from Patent EP1572962.
JD197096 - Sequence 178120 from Patent EP1572962.
JD085651 - Sequence 66675 from Patent EP1572962.
JD226111 - Sequence 207135 from Patent EP1572962.
JD536108 - Sequence 517132 from Patent EP1572962.
JD509544 - Sequence 490568 from Patent EP1572962.
JD087448 - Sequence 68472 from Patent EP1572962.
JD226047 - Sequence 207071 from Patent EP1572962.
JD252858 - Sequence 233882 from Patent EP1572962.
JD252859 - Sequence 233883 from Patent EP1572962.
JD389665 - Sequence 370689 from Patent EP1572962.
JD389666 - Sequence 370690 from Patent EP1572962.
JD508859 - Sequence 489883 from Patent EP1572962.
JD186998 - Sequence 168022 from Patent EP1572962.
JD371074 - Sequence 352098 from Patent EP1572962.
JD063302 - Sequence 44326 from Patent EP1572962.
JD379327 - Sequence 360351 from Patent EP1572962.
JD368014 - Sequence 349038 from Patent EP1572962.
JD076992 - Sequence 58016 from Patent EP1572962.
JD551172 - Sequence 532196 from Patent EP1572962.
JD240104 - Sequence 221128 from Patent EP1572962.
JD040439 - Sequence 21463 from Patent EP1572962.
JD528274 - Sequence 509298 from Patent EP1572962.
JD546711 - Sequence 527735 from Patent EP1572962.
JD337887 - Sequence 318911 from Patent EP1572962.
JD375892 - Sequence 356916 from Patent EP1572962.
JD044970 - Sequence 25994 from Patent EP1572962.
JD484574 - Sequence 465598 from Patent EP1572962.
JD062583 - Sequence 43607 from Patent EP1572962.
JD369640 - Sequence 350664 from Patent EP1572962.
JD216769 - Sequence 197793 from Patent EP1572962.
JD210983 - Sequence 192007 from Patent EP1572962.
JD431531 - Sequence 412555 from Patent EP1572962.
JD109874 - Sequence 90898 from Patent EP1572962.
JD051612 - Sequence 32636 from Patent EP1572962.
JD258342 - Sequence 239366 from Patent EP1572962.
JD422531 - Sequence 403555 from Patent EP1572962.
JD253942 - Sequence 234966 from Patent EP1572962.
JD055412 - Sequence 36436 from Patent EP1572962.
JD168928 - Sequence 149952 from Patent EP1572962.
JD225511 - Sequence 206535 from Patent EP1572962.
JD439364 - Sequence 420388 from Patent EP1572962.
JD250771 - Sequence 231795 from Patent EP1572962.
JD504796 - Sequence 485820 from Patent EP1572962.
JD531192 - Sequence 512216 from Patent EP1572962.
JD397507 - Sequence 378531 from Patent EP1572962.
JD039612 - Sequence 20636 from Patent EP1572962.
JD363814 - Sequence 344838 from Patent EP1572962.
JD150720 - Sequence 131744 from Patent EP1572962.
JD147453 - Sequence 128477 from Patent EP1572962.
JD086145 - Sequence 67169 from Patent EP1572962.
JD154799 - Sequence 135823 from Patent EP1572962.
JD073906 - Sequence 54930 from Patent EP1572962.
JD345439 - Sequence 326463 from Patent EP1572962.
JD467883 - Sequence 448907 from Patent EP1572962.
JD071341 - Sequence 52365 from Patent EP1572962.
JD500572 - Sequence 481596 from Patent EP1572962.
JD140277 - Sequence 121301 from Patent EP1572962.
JD098060 - Sequence 79084 from Patent EP1572962.
JD508478 - Sequence 489502 from Patent EP1572962.
JD203272 - Sequence 184296 from Patent EP1572962.
JD331322 - Sequence 312346 from Patent EP1572962.
JD290216 - Sequence 271240 from Patent EP1572962.
JD404431 - Sequence 385455 from Patent EP1572962.
JD559110 - Sequence 540134 from Patent EP1572962.
JD354470 - Sequence 335494 from Patent EP1572962.
JD109883 - Sequence 90907 from Patent EP1572962.
JD501687 - Sequence 482711 from Patent EP1572962.
JD121196 - Sequence 102220 from Patent EP1572962.
JD180462 - Sequence 161486 from Patent EP1572962.
JD562290 - Sequence 543314 from Patent EP1572962.
JD072680 - Sequence 53704 from Patent EP1572962.
JD434689 - Sequence 415713 from Patent EP1572962.
JD055914 - Sequence 36938 from Patent EP1572962.
JD543882 - Sequence 524906 from Patent EP1572962.
JD114107 - Sequence 95131 from Patent EP1572962.
JD043644 - Sequence 24668 from Patent EP1572962.
JD289731 - Sequence 270755 from Patent EP1572962.
JD130051 - Sequence 111075 from Patent EP1572962.
JD550692 - Sequence 531716 from Patent EP1572962.
JD297329 - Sequence 278353 from Patent EP1572962.
JD349679 - Sequence 330703 from Patent EP1572962.
MA579453 - JP 2018138019-A/151379: Polycomb-Associated Non-Coding RNAs.
MA579454 - JP 2018138019-A/151380: Polycomb-Associated Non-Coding RNAs.
MA579455 - JP 2018138019-A/151381: Polycomb-Associated Non-Coding RNAs.
MA446661 - JP 2018138019-A/18587: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: C18orf1, NM_181482, NP_852147, O15165-2, uc002ksb.2
UCSC ID: uc002ksb.3
RefSeq Accession: NM_181482
Protein: O15165-2, splice isoform of O15165 CCDS: CCDS32794.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_181482.4
exon count: 6CDS single in 3' UTR: no RNA size: 8689
ORF size: 867CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1815.50frame shift in genome: no % Coverage: 100.00
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.