Human Gene CNPY2 (uc001sku.2) Description and Page Index
  Description: Homo sapiens canopy 2 homolog (zebrafish) (CNPY2), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:56,704,213-56,710,128 Size: 5,916 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr12:56,704,336-56,709,001 Size: 4,666 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr12:56,704,213-56,710,128)mRNA (may differ from genome)Protein (182 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Protein canopy homolog 2; AltName: Full=MIR-interacting saposin-like protein; AltName: Full=Putative secreted protein Zsig9; AltName: Full=Transmembrane protein 4; Flags: Precursor;
FUNCTION: Positive regulator of neurite outgrowth by stabilizing myosin regulatory light chain (MRLC). It prevents MIR-mediated MRLC ubiquitination and its subsequent proteasomal degradation.
SUBUNIT: Interacts with MYLIP/MIR.
SUBCELLULAR LOCATION: Endoplasmic reticulum (Potential).
TISSUE SPECIFICITY: Expressed in different tissues. Highest levels are detected in adult placenta, liver and pancreas.
SIMILARITY: Belongs to the canopy family.
SIMILARITY: Contains 1 saposin B-type domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CNPY2
CDC HuGE Published Literature: CNPY2

-  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: 13.56 RPKM in Pituitary
Total median expression: 256.76 RPKM

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -251.20549-0.458 Picture PostScript Text
3' UTR -24.40123-0.198 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
IPR021852 - DUF3456
IPR008139 - SaposinB

Pfam Domains:
PF11938 - TLR4 regulator and MIR-interacting MSAP

ModBase Predicted Comparative 3D Structure on Q9Y2B0
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 BrowserGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 Protein SequenceProtein SequenceProtein SequenceProtein Sequence 

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

Biological Process:
GO:0007167 enzyme linked receptor protein signaling pathway
GO:0009888 tissue development
GO:0010629 negative regulation of gene expression
GO:0010988 regulation of low-density lipoprotein particle clearance
GO:0045716 positive regulation of low-density lipoprotein particle receptor biosynthetic process

Cellular Component:
GO:0005783 endoplasmic reticulum
GO:0005887 integral component of plasma membrane

-  Descriptions from all associated GenBank mRNAs
  LF208957 - JP 2014500723-A/16460: Polycomb-Associated Non-Coding RNAs.
BC065015 - Homo sapiens canopy 2 homolog (zebrafish), mRNA (cDNA clone MGC:74660 IMAGE:6169229), complete cds.
AB015631 - Homo sapiens mRNA for type II membrane protein, complete cds, clone:HP10390.
AY359102 - Homo sapiens clone DNA93012 TMEM4 (UNQ1943) mRNA, complete cds.
AY032624 - Homo sapiens saposin-like protein mRNA, complete cds.
JD274025 - Sequence 255049 from Patent EP1572962.
JD431365 - Sequence 412389 from Patent EP1572962.
JD060604 - Sequence 41628 from Patent EP1572962.
JD104282 - Sequence 85306 from Patent EP1572962.
JD454964 - Sequence 435988 from Patent EP1572962.
JD510435 - Sequence 491459 from Patent EP1572962.
HQ448080 - Synthetic construct Homo sapiens clone IMAGE:100071460; CCSB012341_01 transmembrane protein 4 (CNPY2) gene, encodes complete protein.
KJ893009 - Synthetic construct Homo sapiens clone ccsbBroadEn_02403 CNPY2 gene, encodes complete protein.
AK312921 - Homo sapiens cDNA, FLJ93370, Homo sapiens transmembrane protein 4 (TMEM4), mRNA.
AL831869 - Homo sapiens mRNA; cDNA DKFZp547M0716 (from clone DKFZp547M0716).
LF324479 - JP 2014500723-A/131982: Polycomb-Associated Non-Coding RNAs.
LF324478 - JP 2014500723-A/131981: Polycomb-Associated Non-Coding RNAs.
BC001027 - Homo sapiens canopy 2 homolog (zebrafish), mRNA (cDNA clone IMAGE:3344788), complete cds.
AF186113 - Homo sapiens putative secreted protein ZSIG9 (ZSIG9) mRNA, complete cds.
LF324475 - JP 2014500723-A/131978: Polycomb-Associated Non-Coding RNAs.
JD369040 - Sequence 350064 from Patent EP1572962.
JD192867 - Sequence 173891 from Patent EP1572962.
JD142327 - Sequence 123351 from Patent EP1572962.
JD211201 - Sequence 192225 from Patent EP1572962.
JD442570 - Sequence 423594 from Patent EP1572962.
JD260570 - Sequence 241594 from Patent EP1572962.
JD132715 - Sequence 113739 from Patent EP1572962.
MA560056 - JP 2018138019-A/131982: Polycomb-Associated Non-Coding RNAs.
MA560055 - JP 2018138019-A/131981: Polycomb-Associated Non-Coding RNAs.
MA560052 - JP 2018138019-A/131978: Polycomb-Associated Non-Coding RNAs.
MA444534 - JP 2018138019-A/16460: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R7B9, CNPY2_HUMAN, MSAP, NM_014255, NP_055070, Q9UHE9, Q9Y2B0, TMEM4, UNQ1943/PRO4426, ZSIG9
UCSC ID: uc001sku.2
RefSeq Accession: NM_014255
Protein: Q9Y2B0 (aka CNPY2_HUMAN)
CCDS: CCDS8914.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_014255.5
exon count: 6CDS single in 3' UTR: no RNA size: 1247
ORF size: 549CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1298.00frame 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.