PTX3 (pentraxin 3) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: PTX3 (pentraxin 3) Sus scrofa
Analyze
Symbol: PTX3
Name: pentraxin 3
RGD ID: 14248854
Description: ENCODES a protein that exhibits (1->3)-beta-D-glucan binding (inferred); identical protein binding (inferred); virion binding (inferred); INVOLVED IN extracellular matrix organization (ortholog); negative regulation of exo-alpha-sialidase activity (ortholog); negative regulation of glycoprotein metabolic process (ortholog); ASSOCIATED WITH Arsenic Poisoning (ortholog); cystic fibrosis (ortholog); Diabetic Foot (ortholog); FOUND IN extracellular space (ortholog); INTERACTS WITH N-acetyl-L-cysteine; zearalenone
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: pentraxin 3, long; pentraxin-related protein PTX3; PTX-3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1397,273,594 - 97,279,569 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11397,273,594 - 97,279,570 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213105,440,917 - 105,446,892 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:22120828   PMID:28039065  


Genomics

Comparative Map Data
PTX3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1397,273,594 - 97,279,569 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11397,273,594 - 97,279,570 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213105,440,917 - 105,446,892 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PTX3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3157,436,850 - 157,443,633 (+)EnsemblGRCh38hg38GRCh38
GRCh383157,436,850 - 157,443,633 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373157,154,639 - 157,161,422 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363158,637,301 - 158,644,071 (+)NCBINCBI36hg18NCBI36
Build 343158,637,308 - 158,644,078NCBI
Celera3155,578,255 - 155,585,092 (+)NCBI
Cytogenetic Map3q25.32NCBI
HuRef3154,550,694 - 154,557,531 (+)NCBIHuRef
CHM1_13157,117,566 - 157,124,403 (+)NCBICHM1_1
Ptx3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39366,127,308 - 66,133,227 (+)NCBIGRCm39mm39
GRCm39 Ensembl366,127,331 - 66,133,226 (+)Ensembl
GRCm38366,219,887 - 66,225,806 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl366,219,910 - 66,225,805 (+)EnsemblGRCm38mm10GRCm38
MGSCv37366,023,809 - 66,029,728 (+)NCBIGRCm37mm9NCBIm37
MGSCv36366,307,812 - 66,313,734 (+)NCBImm8
Celera366,363,920 - 66,369,839 (+)NCBICelera
Cytogenetic Map3E1NCBI
cM Map330.25NCBI
Ptx3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22150,487,513 - 150,493,323 (+)NCBI
Rnor_6.0 Ensembl2158,097,843 - 158,103,653 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02158,097,843 - 158,103,653 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02177,457,263 - 177,463,073 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42156,089,917 - 156,095,726 (+)NCBIRGSC3.4rn4RGSC3.4
Celera2144,894,946 - 144,900,755 (+)NCBICelera
Cytogenetic Map2q31NCBI
Ptx3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554488,366,925 - 8,372,411 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554488,366,795 - 8,373,010 (+)NCBIChiLan1.0ChiLan1.0
PTX3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13162,537,440 - 162,544,263 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3162,537,577 - 162,543,652 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03154,485,470 - 154,492,293 (+)NCBIMhudiblu_PPA_v0panPan3
PTX3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12350,952,835 - 50,958,607 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2350,952,885 - 50,958,167 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2350,825,322 - 50,831,079 (+)NCBI
ROS_Cfam_1.02351,586,874 - 51,592,673 (+)NCBI
UMICH_Zoey_3.12351,169,291 - 51,175,068 (+)NCBI
UNSW_CanFamBas_1.02351,222,224 - 51,228,028 (+)NCBI
UU_Cfam_GSD_1.02351,507,584 - 51,513,394 (+)NCBI
Ptx3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560285,424,779 - 85,430,719 (-)NCBI
SpeTri2.0NW_0049365194,303,549 - 4,309,143 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTX3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11533,320,592 - 33,327,236 (-)NCBI
ChlSab1.1 Ensembl1533,321,208 - 33,327,268 (-)Ensembl
Ptx3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473035,125,536 - 35,131,645 (+)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1
Low 9 1 3 1 2 19 2 2
Below cutoff 1 3 3 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000012837   ⟹   ENSSSCP00000012497
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1397,273,594 - 97,279,569 (+)Ensembl
RefSeq Acc Id: NM_001244783   ⟹   NP_001231712
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11397,273,594 - 97,279,570 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001231712 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ANJ46799 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001231712   ⟸   NM_001244783
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSSSCP00000012497   ⟸   ENSSSCT00000012837


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011727 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070001481 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000012497 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070002304 UniProtKB/TrEMBL
  ENSSSCP00070002312 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000012837 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070002787 UniProtKB/TrEMBL
  ENSSSCT00070002796 UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/TrEMBL
  Pentaxin_CS UniProtKB/TrEMBL
  Pentraxin-related UniProtKB/TrEMBL
  PTX3 UniProtKB/TrEMBL
NCBI Gene PTX3 ENTREZGENE
PANTHER PTHR46943 UniProtKB/TrEMBL
Pfam Pentaxin UniProtKB/TrEMBL
PRINTS PENTAXIN UniProtKB/TrEMBL
PROSITE PTX_1 UniProtKB/TrEMBL
  PTX_2 UniProtKB/TrEMBL
SMART PTX UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/TrEMBL
UniProt A0A4X1SJS5_PIG UniProtKB/TrEMBL
  A0A4X1SK74_PIG UniProtKB/TrEMBL
  F1SJM0_PIG UniProtKB/TrEMBL
VGNC ID VGNC:92000 ENTREZGENE