Cnpy2 (canopy FGF signaling regulator 2) - Rat Genome Database

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Gene: Cnpy2 (canopy FGF signaling regulator 2) Rattus norvegicus
Analyze
Symbol: Cnpy2
Name: canopy FGF signaling regulator 2
RGD ID: 1589072
Description: Predicted to be active in endoplasmic reticulum. Orthologous to human CNPY2 (canopy FGF signaling regulator 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: canopy 2 homolog; canopy 2 homolog (zebrafish); MGC156825; protein canopy homolog 2; similar to MIR-interacting saposin-like protein precursor (Transmembrane protein 4) (Putative secreted protein ZSIG9); Tmem4; transmembrane protein 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,332,293 - 1,338,081 (+)NCBIGRCr8
mRatBN7.27748,877 - 754,352 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7749,008 - 755,519 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx73,507,573 - 3,512,182 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,383,555 - 5,388,163 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0PNS010000892.120,825 - 25,404 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.072,737,674 - 2,744,321 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl72,737,765 - 2,742,369 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.072,716,178 - 2,720,782 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,611,268 - 1,615,873 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7624,349 - 628,932 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:22378787  


Genomics

Comparative Map Data
Cnpy2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr871,332,293 - 1,338,081 (+)NCBIGRCr8
mRatBN7.27748,877 - 754,352 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7749,008 - 755,519 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx73,507,573 - 3,512,182 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.075,383,555 - 5,388,163 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0PNS010000892.120,825 - 25,404 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.072,737,674 - 2,744,321 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl72,737,765 - 2,742,369 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.072,716,178 - 2,720,782 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.471,611,268 - 1,615,873 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7624,349 - 628,932 (+)NCBICelera
Cytogenetic Map7q11NCBI
CNPY2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381256,309,844 - 56,316,346 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1256,309,842 - 56,316,119 (-)EnsemblGRCh38hg38GRCh38
GRCh371256,703,628 - 56,710,130 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361254,990,484 - 54,996,387 (-)NCBINCBI36Build 36hg18NCBI36
Build 341254,990,483 - 54,996,387NCBI
Celera1256,357,026 - 56,362,916 (-)NCBICelera
Cytogenetic Map12q13.3NCBI
HuRef1253,742,706 - 53,748,604 (-)NCBIHuRef
CHM1_11256,671,646 - 56,677,548 (-)NCBICHM1_1
T2T-CHM13v2.01256,277,503 - 56,283,991 (-)NCBIT2T-CHM13v2.0
Cnpy2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910128,157,972 - 128,163,056 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10128,158,328 - 128,163,422 (+)EnsemblGRCm39 Ensembl
GRCm3810128,322,158 - 128,327,187 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10128,322,459 - 128,327,553 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710127,759,515 - 127,764,243 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610127,725,408 - 127,730,136 (+)NCBIMGSCv36mm8
Celera10130,710,752 - 130,715,478 (+)NCBICelera
Cytogenetic Map10D3NCBI
cM Map1076.52NCBI
Cnpy2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554583,920,743 - 3,924,781 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554583,921,208 - 3,924,785 (-)NCBIChiLan1.0ChiLan1.0
CNPY2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21038,016,839 - 38,021,635 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11238,012,503 - 38,018,401 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01232,599,047 - 32,604,934 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11232,851,797 - 32,857,607 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1232,851,796 - 32,857,607 (+)Ensemblpanpan1.1panPan2
CNPY2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.110617,633 - 620,839 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl10617,631 - 620,450 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha10681,048 - 684,038 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.010626,270 - 629,260 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl10626,271 - 629,090 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.110603,704 - 606,694 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.010846,677 - 849,667 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.010970,572 - 973,564 (-)NCBIUU_Cfam_GSD_1.0
Cnpy2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494558,150,801 - 58,155,157 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936646714,375 - 719,431 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936646715,619 - 719,434 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNPY2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl521,707,834 - 21,711,292 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1521,707,834 - 21,711,292 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2523,205,864 - 23,209,324 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNPY2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11152,267,991 - 52,273,460 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1152,268,099 - 52,272,855 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037193,714,046 - 193,719,328 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cnpy2
32 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:41
Interacting mature miRNAs:42
Transcripts:ENSRNOT00000004895
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat

Markers in Region
RH137034  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27747,515 - 747,665 (+)MAPPERmRatBN7.2
Rnor_6.072,736,313 - 2,736,462NCBIRnor6.0
Rnor_5.072,714,726 - 2,714,875UniSTSRnor5.0
RGSC_v3.471,609,816 - 1,609,965UniSTSRGSC3.4
Celera7622,902 - 623,051UniSTS
Cytogenetic Map7q11UniSTS
RH139116  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27747,456 - 747,628 (+)MAPPERmRatBN7.2
Rnor_6.072,736,254 - 2,736,425NCBIRnor6.0
Rnor_5.072,714,667 - 2,714,838UniSTSRnor5.0
RGSC_v3.471,609,757 - 1,609,928UniSTSRGSC3.4
Celera7622,843 - 623,014UniSTS
Cytogenetic Map7q11UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 40 11 8
Low 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004895   ⟹   ENSRNOP00000004895
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7749,021 - 755,519 (+)Ensembl
Rnor_6.0 Ensembl72,737,765 - 2,742,369 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105756   ⟹   ENSRNOP00000094227
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7749,008 - 754,341 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000106896   ⟹   ENSRNOP00000096727
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7749,156 - 754,252 (+)Ensembl
RefSeq Acc Id: NM_001077585   ⟹   NP_001071053
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,333,476 - 1,338,081 (+)NCBI
mRatBN7.27748,968 - 753,575 (+)NCBI
Rnor_6.072,737,765 - 2,742,370 (+)NCBI
Rnor_5.072,716,178 - 2,720,782 (+)NCBI
RGSC_v3.471,611,268 - 1,615,873 (+)RGD
Celera7624,349 - 628,932 (+)RGD
Sequence:
RefSeq Acc Id: XM_039079903   ⟹   XP_038935831
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,332,293 - 1,338,078 (+)NCBI
mRatBN7.27748,877 - 753,575 (+)NCBI
RefSeq Acc Id: XM_063264262   ⟹   XP_063120332
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr871,332,293 - 1,338,078 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001071053   ⟸   NM_001077585
- Peptide Label: precursor
- UniProtKB: A0JN30 (UniProtKB/TrEMBL),   A0A8I6APW9 (UniProtKB/TrEMBL),   A0A8I6GKM8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004895   ⟸   ENSRNOT00000004895
RefSeq Acc Id: XP_038935831   ⟸   XM_039079903
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000094227   ⟸   ENSRNOT00000105756
RefSeq Acc Id: ENSRNOP00000096727   ⟸   ENSRNOT00000106896
RefSeq Acc Id: XP_063120332   ⟸   XM_063264262
- Peptide Label: isoform X1
Protein Domains
DUF3456   Saposin B-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0JN30-F1-model_v2 AlphaFold A0JN30 1-182 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13694932
Promoter ID:EPDNEW_R5457
Type:initiation region
Name:Cnpy2_1
Description:canopy FGF signaling regulator 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.072,737,970 - 2,738,030EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589072 AgrOrtholog
BioCyc Gene G2FUF-35377 BioCyc
Ensembl Genes ENSRNOG00000003549 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004895.4 UniProtKB/TrEMBL
  ENSRNOT00000105756.1 UniProtKB/TrEMBL
  ENSRNOT00000106896 ENTREZGENE
  ENSRNOT00000106896.1 UniProtKB/TrEMBL
Gene3D-CATH Saposin-like UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7319422 IMAGE-MGC_LOAD
InterPro CNPY UniProtKB/TrEMBL
  DUF3456 UniProtKB/TrEMBL
  SaposinB UniProtKB/TrEMBL
KEGG Report rno:685814 UniProtKB/TrEMBL
MGC_CLONE MGC:156825 IMAGE-MGC_LOAD
NCBI Gene 685814 ENTREZGENE
PANTHER PROTEIN CANOPY HOMOLOG 2 UniProtKB/TrEMBL
  PTHR13341 UniProtKB/TrEMBL
Pfam DUF3456 UniProtKB/TrEMBL
PhenoGen Cnpy2 PhenoGen
PROSITE SAP_B UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003549 RatGTEx
UniProt A0A8I6APW9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GKM8 ENTREZGENE, UniProtKB/TrEMBL
  A0JN30 ENTREZGENE, UniProtKB/TrEMBL
  F7F9V5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-01 Cnpy2  canopy FGF signaling regulator 2  Cnpy2  canopy 2 homolog (zebrafish)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Cnpy2  canopy 2 homolog (zebrafish)  LOC684485  similar to MIR-interacting saposin-like protein precursor (Transmembrane protein 4) (Putative secreted protein ZSIG9)  Data merged from RGD:1590282 1643240 APPROVED
2008-05-02 Cnpy2  canopy 2 homolog (zebrafish)  Tmem4  transmembrane protein 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Tmem4  transmembrane protein 4  MGC156825  similar to MIR-interacting saposin-like protein precursor (Transmembrane protein 4) (Putative secreted protein ZSIG9)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC684485  similar to MIR-interacting saposin-like protein precursor (Transmembrane protein 4) (Putative secreted protein ZSIG9)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 MGC156825  similar to MIR-interacting saposin-like protein precursor (Transmembrane protein 4) (Putative secreted protein ZSIG9)      Symbol and Name status set to provisional 70820 PROVISIONAL