Nptx1 (neuronal pentraxin 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Nptx1 (neuronal pentraxin 1) Mus musculus
Analyze
Symbol: Nptx1
Name: neuronal pentraxin 1
RGD ID: 1321572
MGI Page MGI
Description: Predicted to enable metal ion binding activity. Acts upstream of or within axonogenesis involved in innervation. Predicted to be located in mitochondrion. Predicted to be active in several cellular components, including glutamatergic synapse; neuron projection; and synaptic cleft. Is expressed in central nervous system; dorsal root ganglion; molar; and retina. Orthologous to human NPTX1 (neuronal pentraxin 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: D11Bwg1004e; N; neuronal pentraxin I; neuronal pentraxin-1; NP-I; Np1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911119,429,545 - 119,438,646 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11119,429,545 - 119,438,579 (-)EnsemblGRCm39 Ensembl
GRCm3811119,538,719 - 119,547,820 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11119,538,719 - 119,547,753 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711119,400,033 - 119,409,134 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611119,355,462 - 119,363,915 (-)NCBIMGSCv36mm8
Celera11131,286,494 - 131,295,595 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1183.95NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-colchicine  (ISO)
1,2,4-trimethylbenzene  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4,4'-sulfonyldiphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (ISO)
antimycin A  (ISO)
aristolochic acid A  (ISO)
arsane  (EXP)
arsenic atom  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
boron nitride  (ISO)
bortezomib  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
chlordecone  (EXP)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (ISO)
cyclosporin A  (ISO)
deguelin  (ISO)
dextran sulfate  (EXP)
dichloroacetic acid  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
hydrogen peroxide  (ISO)
isobutanol  (ISO)
ivermectin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
mercury dibromide  (ISO)
methylisothiazolinone  (ISO)
monosodium L-glutamate  (EXP)
N-nitrosodiethylamine  (EXP)
naphthalenes  (ISO)
ozone  (EXP)
p-chloromercuribenzoic acid  (ISO)
PCB138  (EXP)
pentanal  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
picoxystrobin  (ISO)
propanal  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
sevoflurane  (EXP)
silicon dioxide  (ISO)
sotorasib  (ISO)
succimer  (EXP,ISO)
sulforaphane  (EXP,ISO)
thioacetamide  (ISO)
trametinib  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
triptonide  (EXP)
undecane  (ISO)
valproic acid  (ISO)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Genetic mapping of 262 loci derived from expressed sequences in a murine interspecific cross using single-strand conformational polymorphism analysis. Brady KP, etal., Genome Res 1997 Nov;7(11):1085-93.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. Characterization of the murine mafF gene. Onodera K, etal., J Biol Chem 1999 Jul 23;274(30):21162-9.
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8884281   PMID:10349636   PMID:10748068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12167713   PMID:12477932   PMID:16141072   PMID:16141073   PMID:16602821   PMID:16763034  
PMID:17329426   PMID:17356169   PMID:17610819   PMID:18057201   PMID:18840757   PMID:20392962   PMID:21130869   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22279230   PMID:23069675  
PMID:23322555   PMID:23525449   PMID:25526743   PMID:25554688   PMID:26100917   PMID:27707966   PMID:28007910   PMID:29024665   PMID:29156706   PMID:29486577   PMID:31040226   PMID:32325033  
PMID:32581705   PMID:33512875   PMID:33628204   PMID:34098747   PMID:34321999   PMID:35291971  


Genomics

Comparative Map Data
Nptx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911119,429,545 - 119,438,646 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11119,429,545 - 119,438,579 (-)EnsemblGRCm39 Ensembl
GRCm3811119,538,719 - 119,547,820 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11119,538,719 - 119,547,753 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711119,400,033 - 119,409,134 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611119,355,462 - 119,363,915 (-)NCBIMGSCv36mm8
Celera11131,286,494 - 131,295,595 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1183.95NCBI
NPTX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381780,466,834 - 80,476,607 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1780,466,834 - 80,477,843 (-)EnsemblGRCh38hg38GRCh38
GRCh371778,440,634 - 78,450,407 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361776,055,228 - 76,064,999 (-)NCBINCBI36Build 36hg18NCBI36
Build 341776,055,227 - 76,064,999NCBI
Celera1775,069,005 - 75,078,529 (-)NCBICelera
Cytogenetic Map17q25.3NCBI
HuRef1773,878,650 - 73,888,424 (-)NCBIHuRef
CHM1_11778,526,902 - 78,536,673 (-)NCBICHM1_1
T2T-CHM13v2.01781,368,723 - 81,378,497 (-)NCBIT2T-CHM13v2.0
Nptx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.210104,811,107 - 104,820,358 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10104,811,403 - 104,820,367 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10109,914,282 - 109,923,567 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.010109,377,316 - 109,386,601 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.010104,731,702 - 104,740,953 (-)NCBIRnor_WKY
Rnor_6.010108,682,637 - 108,691,592 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10108,682,638 - 108,691,367 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010108,286,989 - 108,295,944 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410108,918,661 - 108,927,616 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera10103,356,568 - 103,365,489 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
Nptx1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555062,447,109 - 2,456,965 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555062,447,429 - 2,456,612 (+)NCBIChiLan1.0ChiLan1.0
NPTX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11780,629,443 - 80,638,376 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01774,896,150 - 74,905,917 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
NPTX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.191,388,728 - 1,398,115 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl91,388,407 - 1,399,390 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha92,006,248 - 2,015,635 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.091,998,099 - 2,007,496 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl91,998,127 - 2,007,488 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.192,021,740 - 2,031,119 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.092,147,267 - 2,156,623 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.092,228,148 - 2,237,541 (+)NCBIUU_Cfam_GSD_1.0
Nptx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244056022,027,566 - 2,038,459 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365944,373,473 - 4,384,461 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365944,373,500 - 4,384,394 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NPTX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl122,036,810 - 2,046,193 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1122,036,727 - 2,046,202 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2121,938,606 - 1,948,101 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NPTX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11672,438,728 - 72,449,205 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1672,439,482 - 72,449,139 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607743,751,846 - 43,761,582 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nptx1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248019,628,882 - 9,637,859 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248019,628,878 - 9,637,869 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir210mmu-miR-210-3pMirecordsexternal_infoNANA18539147

Predicted Target Of
Summary Value
Count of predictions:1985
Count of miRNA genes:699
Interacting mature miRNAs:919
Transcripts:ENSMUST00000026670
Prediction methods:Miranda, Rnahybrid, Targetscan
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
14747003Mancz9_mmandible centroid size 9 (mouse)1185844911119844911Mouse
15039374Adip29_madiposity 29 (mouse)1186608320120608320Mouse
15039376Bw42_mbody weight QTL 42 (mouse)1186608320120608320Mouse
15014785Mvlq1_mmacrovesicular liver lesion QTL 1 (mouse)1186608320120608320Mouse
27226789Feml16_mfemur length 16, 10 week (mouse)1187490826121873369Mouse
10044007Hbnr14_mHeligmosomoides bakeri nematode resistance 14 (mouse)Not determined1187502600121502698Mouse
11251723Ewc5_methanol withdrawal and consumption 5 (mouse)1189869251121973369Mouse
1558753Ath19_matherosclerosis 19 (mouse)Not determined1191604608121973369Mouse
1302034Pkccl_mprotein kinase C content in lungs (mouse)Not determined1191604608121973369Mouse
1301095El6_mepilepsy 6 (mouse)Not determined1193229183121973369Mouse
1301958Alcp18_malcohol preference locus 18 (mouse)Not determined1195403965121973369Mouse
1300944Alcp20_malcohol preference locus 20 (mouse)Not determined1195403965121973369Mouse
1300962Cd8mts4_mCD8 memory T cell subset 4 (mouse)Not determined1196137674121973369Mouse
1301057Nidd4_mnon-insulin-dependent diabetes mellitus 4 (mouse)Not determined1196810136121973369Mouse
1301983Berr2_mberghei resistance locus 2 (mouse)Not determined1198352609121973369Mouse
10043976Obq33_mobesity QTL 33 (mouse)Not determined1198500469121973369Mouse
10044001Alcw8_malcohol withdrawal 8 (mouse)Not determined1199254187121973369Mouse
11553867Stmm5_mskin tumor modifier of MSM 5 (mouse)11100058103121973369Mouse
11341721Rvfs2_mRift Valley fever susceptibility 2 (mouse)11100254186120887165Mouse
1301012Vispl_mvisual placing (mouse)Not determined11101022590121973369Mouse

Markers in Region
Nptx1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3811119,538,762 - 119,538,873UniSTSGRCm38
MGSCv3711119,400,076 - 119,400,187UniSTSGRCm37
Celera11131,286,537 - 131,286,648UniSTS
Cytogenetic Map11E1-E2UniSTS
cM Map1175.0UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000026670   ⟹   ENSMUSP00000026670
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11119,429,545 - 119,438,579 (-)Ensembl
GRCm38.p6 Ensembl11119,538,719 - 119,547,753 (-)Ensembl
RefSeq Acc Id: NM_008730   ⟹   NP_032756
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911119,429,545 - 119,438,646 (-)NCBI
GRCm3811119,538,719 - 119,547,820 (-)ENTREZGENE
MGSCv3711119,400,033 - 119,409,134 (-)RGD
Celera11131,286,494 - 131,295,595 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_032756   ⟸   NM_008730
- Peptide Label: precursor
- UniProtKB: Q62443 (UniProtKB/Swiss-Prot),   A2ACL9 (UniProtKB/TrEMBL),   Q3UST4 (UniProtKB/TrEMBL),   A0A8C6HA40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000026670   ⟸   ENSMUST00000026670
Protein Domains
Pentraxin (PTX)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62443-F1-model_v2 AlphaFold Q62443 1-432 view protein structure

Promoters
RGD ID:6821456
Promoter ID:MM_KWN:10851
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   ES_Cell,   Lung
Transcripts:NM_008730
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3611119,408,719 - 119,409,219 (-)MPROMDB
RGD ID:8677616
Promoter ID:EPDNEW_M16838
Type:single initiation site
Name:Nptx1_1
Description:Mus musculus neuronal pentraxin 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3811119,547,750 - 119,547,810EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:107811 AgrOrtholog
Ensembl Genes ENSMUSG00000025582 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000026670 ENTREZGENE
  ENSMUSP00000026670.5 UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000026670 ENTREZGENE
  ENSMUST00000026670.5 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.200 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pentaxin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pentraxin-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:18164 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:107811 ENTREZGENE
NCBI Gene 18164 ENTREZGENE
PANTHER NEURONAL PENTRAXIN-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PENTRAXIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Pentaxin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nptx1 PhenoGen
PRINTS PENTAXIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PTX_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PTX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8C6HA40 ENTREZGENE
  A2ACL9 ENTREZGENE, UniProtKB/TrEMBL
  NPTX1_MOUSE UniProtKB/Swiss-Prot
  Q3UST4 ENTREZGENE, UniProtKB/TrEMBL
  Q62443 ENTREZGENE