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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

CNPY2 Gene

protein-coding GIFtS: 49
GCID: GC12M056704

canopy 2 homolog (zebrafish)

(Previous name: transmembrane protein 4 )
(Previous symbol: TMEM4)

Search for CNPY2
in

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(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
Canopy 2 Homolog (Zebrafish)¹ ²		Putative Secreted Protein Zsig9² ³
TMEM4¹ ² ³ ⁵		MIR-Interacting Saposin-Like Protein² ³
Transmembrane Protein 4¹ ² ³		Cnpy2¹
ZSIG9¹ ² ³		Protein Canopy Homolog 2²
MSAP² ³ ⁵		CNPY4⁵
HP10390¹ ²

External Ids:	HGNC: 13529¹	Entrez Gene: 10330²	Ensembl: ENSG00000257727⁷	OMIM: 605861⁵	UniProtKB: Q9Y2B0³

Export aliases for CNPY2 gene to outside databases

Previous GC identifers: GC12M054991 GC12M053742

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: CNPY2_HUMAN, Q9Y2B0

Function: Positive regulator of neurite outgrowth by stabilizing myosin regulatory light chain (MRLC). It prevents

MIR-mediated MRLC ubiquitination and its subsequent proteasomal degradation

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000012.11 NC_018923.1 NT_029419.12

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the CNPY2 gene promoter:
GR STAT1 CUTL1 GR-alpha STAT5A Nkx2-5
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: CNPY2 promoter sequence

Search SABiosciences Chromatin IP Primers for CNPY2

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CNPY2

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 12q15 Ensembl cytogenetic band: 12q13.3 HGNC cytogenetic band: 12q15

CNPY2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CNPY2 gene location

GeneLoc information about chromosome 12 GeneLoc Exon Structure

GeneLoc location for GC12M056704: view genomic region (about GC identifiers)

Start:	56,703,626 bp from pter	End:	56,710,128 bp from pter
Size:	6,503 bases	Orientation:	minus strand

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CNPY2_HUMAN, Q9Y2B0 (See protein sequence)

Recommended Name: Protein canopy homolog 2 precursor

Size: 182 amino acids; 20652 Da

Subunit: Interacts with MYLIP/MIR

Subcellular location: Endoplasmic reticulum (Potential)

Secondary accessions: B2R7B9 Q9UHE9

Alternative splicing: 2 isoforms: Q9Y2B0-1 Q9Y2B0-2

Explore the universe of human proteins at neXtProt for CNPY2: NX_Q9Y2B0

Post-translational modifications:

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_Q9Y2B0

CNPY2 Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins (2 alternative transcripts):

NP_001177920.1 NP_055070.1

ENSEMBL proteins:

ENSP00000448333 ENSP00000449444 ENSP00000273308 ENSP00000448809 ENSP00000446784

Human Recombinant Protein Products:

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	Uscn Proteins for CNPY2

Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005783	endoplasmic reticulum	IEA	--
GO:0005887	integral to plasma membrane	TAS	10072769

CNPY2 for ontologies About GeneDecksing

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(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

CNPY2 for domains About GeneDecksing

2 InterPro domains/families:

IPR021852 DUF3456

IPR008139 SaposinB

Graphical View of Domain Structure for InterPro Entry Q9Y2B0

ProtoNet protein and cluster: Q9Y2B0

1 Blocks protein family: IPB008139 Saposin B

UniProtKB/Swiss-Prot: CNPY2_HUMAN, Q9Y2B0

Similarity: Belongs to the canopy family

Similarity: Contains 1 saposin B-type domain

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Function Summary:

UniProtKB/Swiss-Prot: CNPY2_HUMAN, Q9Y2B0

Function: Positive regulator of neurite outgrowth by stabilizing myosin regulatory light chain (MRLC). It prevents

MIR-mediated MRLC ubiquitination and its subsequent proteasomal degradation

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In Situ Assay
Products:

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Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005515	protein binding	IPI	12826659

CNPY2 for ontologies About GeneDecksing

1 GenomeRNAi human phenotype for CNPY2:

Increased HPV18 LCR reporter a

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Interactions:

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for CNPY2

STRING Interaction Network Preview (showing 5 interactants - click image to see 7)

5/11 Interacting proteins for CNPY2 (Q9Y2B0³ ENSP00000273308⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 11)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
MLXIP	Q9HAP2³, ENSP00000312834⁴	I2D: score=2 STRING: ENSP00000312834
MYLIP	Q8WY64³, ENSP00000349298⁴	I2D: score=2 STRING: ENSP00000349298
TNIK	Q9UKE5³, ENSP00000399511⁴	I2D: score=1 STRING: ENSP00000399511
ATG5	Q9H1Y0³	I2D: score=1
DDIT3	P35638³	I2D: score=1

About this table

Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0010629	negative regulation of gene expression	ISS	--
GO:0010988	regulation of low-density lipoprotein particle clearance	ISS	--
GO:0045716	positive regulation of low-density lipoprotein particle receptor biosynthetic process	ISS	--

CNPY2 for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for CNPY2
Search CenterWatch for drugs/clinical trials and news about CNPY2

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for CNPY2 gene (2 alternative transcripts):

NM_001190991.1 NM_014255.5

Unigene Cluster for CNPY2:

Canopy 2 homolog (zebrafish)

Hs.8752 [show with all ESTs]

Unigene Representative Sequence: NM_014255

12 Ensembl transcripts including schematic representations, and UCSC links where relevant:

ENST00000546466 ENST00000546937 ENST00000553191 ENST00000273308(uc001sku.2)

ENST00000551475 ENST00000551286 ENST00000551720 ENST00000551276 ENST00000547570

ENST00000548013(uc001skv.3) ENST00000553164 ENST00000546388

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		hsa-miR-3163 hsa-miR-548am hsa-miR-548d-3p hsa-miR-637 hsa-miR-548x
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Additional cDNA sequence:

AB015631.1 AF186113.1 AK312921.1 AL831869.1 AY032624.1 AY359102.1 BC001027.2 BC065015.1

24/26 DOTS entries (see all 26):

DT.454803 DT.75100158 DT.100792688 DT.102835386 DT.121119662 DT.92057331 DT.97766255 DT.316118

DT.75102814 DT.92442269 DT.100044358 DT.95191666 DT.121119964 DT.99950954 DT.100675481 DT.121119675

DT.316119 DT.91665523 DT.95191669 DT.121119623 DT.92442266 DT.95191667 DT.95278790 DT.100792690

24/58 AceView cDNA sequences (see all 58):

BE551426 AW026269 AA355116 CA424280 BI763950 AW089039 BU161616 BF995391

BU629130 AW005464 BM552907 CA432204 BF990365 BU195582 BM832828 BI760558

CN483993 CD675876 CD368274 CR596106 BX280063 BU542456 BQ421069 AA878370

GeneLoc Exon Structure

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

CNPY2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATGAGCTATG

About this image

CNPY2 expression in embryonic tissues and stem cells

Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

1 LifeMap In Vivo Development Anatomical Compartment/Cell

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Ovary

Primary Follicle

Primary Oocyte

Female Gametocytes, Germ Cells

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

See CNPY2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for CNPY2

SOURCE GeneReport for Unigene cluster: Hs.8752

UniProtKB/Swiss-Prot: CNPY2_HUMAN, Q9Y2B0

Tissue specificity: Expressed in different tissues. Highest levels are detected in adult placenta, liver and pancreas

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In Situ
Assay Products:

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(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of eukaryotes.

Orthologs for CNPY2 gene from 9/19 species (see all 19) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
mouse (Mus musculus)	Mammalia	Cnpy2^{1 , 5}	canopy 2 homolog (zebrafish)^{1, 5}	91.58(n)¹ 97.25(a)¹		10 (76.52 cM)⁵ 56530¹ NM_019953.1¹ NP_064337.1¹ 128322459⁵
chicken (Gallus gallus)	Aves	LOC100858933¹	protein canopy homolog 2-like	72.62(n) 75(a)		100858933 XM_003643957.1 XP_003644005.1
lizard (Anolis carolinensis)	Reptilia	--	--	72(a)	1 → many	2(93683612-93691981)
African clawed frog (Xenopus laevis)	Amphibia	Xl.19577²	Xenopus laevis transcribed sequence with moderate similarity more	74.92(n)		BQ387527.1
zebrafish (Danio rerio)	Actinopterygii	cnpy2¹	canopy 2	67.44(n) 68.21(a)		664684 NM_001039826.2 NP_001034915.2
fruit fly (Drosophila melanogaster)	Insecta	sel⁶	seele	24(a)	1 → many	2R(5938367-5939682)
worm (Caenorhabditis elegans)	Secernentea	F01F1.15⁶	Protein F01F1.15	28(a)	1 → many	III(5868543-5869576)
thale cress (Arabidopsis thaliana)	eudicotyledons	AT1G42480⁶	uncharacterized protein	23(a)	1 → many	1(15936207-15938863)
rice (Oryza sativa)	Liliopsida	--	canopy homolog 2 precursor, putative, expressed	27(a)	1 → many	2(900945-906395)

ENSEMBL Gene Tree for CNPY2 (if available)
TreeFam Gene Tree for CNPY2 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for CNPY2 gene

ENSG00000144785² CNPY1²

1 SIMAP similar gene for CNPY2 using alignment to 5 protein entries: CNPY2_HUMAN (see all proteins):

CNPY1

CNPY2 for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

SNP ID	Valid	Clinical significance	Chr 12 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs34026747^1,2	C,F,	--	56703722(+)	`ACCTCG/ATCTGT`	1	--	ds500¹		4		NA	126
rs146352009^1,2		--	56704010(+)	`TGAGTA/GGGCAC`	1	--	ds500¹		0	--	--	--	--
rs73131004^1,2	C,F,	--	56704049(+)	`GGAGTG/CGAATC`	1	--	ds500¹		1		NA	120
rs192712941^1,2		--	56704130(+)	`TTCTCC/TTCCAT`	1	--	ds500¹		0	--	--	--	--
rs10783780^1,2	C,F,A,H,	--	56704152(+)	`TCTATA/GTAACT`	1	--	ds500¹		24		NS EA NA	2720
rs139716087^1,2		--	56704161(+)	`CTCCTC/TATCTT`	1	--	ds500¹		0	--	--	--	--
rs184047174^1,2		--	56704171(+)	`TCAAGC/TTTAAT`	1	--	ds500¹		0	--	--	--	--
rs144428833^1,2	C,F,	--	56704347(+)	`CTCATC/TATGCG`	2	N D	mis¹		1		NA	4550
rs199890306^1,2		--	56704382(+)	`GATCTA/GCAAAT`	1	--	int¹		0	--	--	--	--
rs150636143^1,2	C,	--	56704425(+)	`TACTGA/GTATCT`	1	--	int¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for CNPY2 (56703626 - 56710128 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 1 variation for CNPY2
1 CNV: 0164

SABiosciences Cancer Mutation PCR Assays

Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CNPY2

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

CNPY2 for disorders About MalaCards

CNPY2 for disorders About GeneDecksing

OMIM gene information: 605861 OMIM disorders: --

Human Genome Epidemiology (HuGE) Navigator: CNPY2 (1 document)

Export disorders for CNPY2 gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
About This Section

PubMed articles for CNPY2 gene, integrated from 9 sources (see all 14):
(articles sorted by number of sources associating them with CNPY2)

Utopia: connect your pdf to the dynamic
world of online information

Selection of cDNAs encoding putative type II membrane proteins on the cell surface from a human full-length cDNA bank. (PubMed id 10072769)^{1, 2, 3} Yokoyama-Kobayashi M.... Kato S. (1999)
MSAP is a novel MIR-interacting protein that enhances neurite outgrowth and increases myosin regulatory light chain. (PubMed id 12826659)^{1, 2, 9} Bornhauser B.C.... Lindholm D. (2003)
MSAP enhances migration of C6 glioma cells through phosphorylation of the myosin regulatory light chain. (PubMed id 15905959)^{1, 3} Bornhauser B.C. and Lindholm D. (2005)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S....Malek J. (2004)
The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)^{1, 2} Clark H.F.... Gray A.M. (2003)
Fibroblast growth factor-21 (FGF21) regulates low-dens ity lipoprotein receptor (LDLR) levels in cells via the E3-ubiquitin ligase Myli p/Idol and the Canopy2 (Cnpy2)/Mylip-interacting saposin-like protein (Msap). (PubMed id 22378787)¹ Do H.T....Lindholm D. (2012)
Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)¹ Kim W....Gygi S.P. (2011)
Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)¹ OlA!h J....OvA!di J. (2011)
Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)¹ Danielsen J.M....Nielsen M.L. (2011)
Coeliac disease associated risk variants in TNFAIP3 and REL implicate altered NF-{kappa}B signalling. (PubMed id 19240061)¹ Trynka G....Wijmenga C. (2009)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
Aliases
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Query String		PubMed OMIM NCBI Bookshelf
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(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 10330	HGNC: 13529	AceView: TMEM4	Ensembl:ENSG00000257727	euGenes: HUgn10330
ECgene: CNPY2	H-InvDB: CNPY2

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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Name	Description
PharmGKB entry for CNPY2	Pharmacogenomics, SNPs, Pathways

Intellectual Property for CNPY2 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for CNPY2 gene:
Search GeneIP for patents involving CNPY2

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
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CNPY2 Gene

canopy 2 homolog (zebrafish)

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CNPY2 Gene

canopy 2 homolog (zebrafish)

Aliasesfor CNPY2 gene

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Genomic Viewsfor CNPY2 gene

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Orthologs
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Publications
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Intellectual Property
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