PTX4 (pentraxin 4) - Rat Genome Database

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Gene: PTX4 (pentraxin 4) Sus scrofa
Analyze
Symbol: PTX4
Name: pentraxin 4
RGD ID: 14004842
Description: ASSOCIATED WITH epilepsy (ortholog); genetic disease (ortholog); idiopathic generalized epilepsy (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: pentraxin-4
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 Ensembl340,382,667 - 40,390,812 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1340,383,325 - 40,391,567 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2341,846,547 - 41,854,720 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Genomics

Comparative Map Data
PTX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl340,382,667 - 40,390,812 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1340,383,325 - 40,391,567 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2341,846,547 - 41,854,720 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PTX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38161,485,886 - 1,488,944 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl161,485,886 - 1,488,981 (-)EnsemblGRCh38hg38GRCh38
GRCh37161,535,887 - 1,538,945 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36161,475,941 - 1,478,469 (-)NCBINCBI36Build 36hg18NCBI36
Celera161,748,221 - 1,750,749 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef161,461,875 - 1,464,403 (-)NCBIHuRef
CHM1_1161,535,936 - 1,538,464 (-)NCBICHM1_1
T2T-CHM13v2.0161,500,922 - 1,503,980 (-)NCBIT2T-CHM13v2.0
Ptx4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391725,339,328 - 25,344,256 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1725,339,734 - 25,344,266 (+)EnsemblGRCm39 Ensembl
GRCm381725,120,697 - 25,125,293 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1725,120,760 - 25,125,292 (+)EnsemblGRCm38mm10GRCm38
MGSCv371725,257,705 - 25,262,213 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361724,848,360 - 24,852,868 (+)NCBIMGSCv36mm8
Celera1725,649,343 - 25,653,851 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.53NCBI
Ptx4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81014,644,501 - 14,650,185 (+)NCBIGRCr8
mRatBN7.21014,140,028 - 14,146,163 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,140,304 - 14,144,846 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01014,481,044 - 14,486,277 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1014,481,393 - 14,485,916 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,296,757 - 14,301,718 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,368,352 - 14,372,875 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11014,368,351 - 14,372,875 (+)NCBI
Celera1013,812,631 - 13,817,866 (+)NCBICelera
Cytogenetic Map10q12NCBI
Ptx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544215,752,957 - 15,756,801 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544215,750,881 - 15,757,906 (+)NCBIChiLan1.0ChiLan1.0
PTX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2181,745,644 - 1,751,548 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1165,532,974 - 5,538,821 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v016105,005 - 113,730 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1161,540,411 - 1,543,522 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl161,540,411 - 1,543,413 (-)Ensemblpanpan1.1panPan2
PTX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1639,320,647 - 39,328,256 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl639,322,920 - 39,327,711 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha640,590,542 - 40,595,951 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0639,668,577 - 39,673,986 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl639,669,213 - 39,673,132 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1639,345,687 - 39,351,096 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0639,317,861 - 39,323,270 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0639,796,614 - 39,802,024 (+)NCBIUU_Cfam_GSD_1.0
Ptx4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344104,269,796 - 104,274,202 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366942,436,755 - 2,441,802 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366942,435,291 - 2,439,837 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.151,394,909 - 1,404,015 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl51,395,234 - 1,398,238 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606829,682,743 - 29,691,894 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptx4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624913736,680 - 739,342 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624913732,810 - 742,648 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PTX4
31 total Variants

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
Low 9 3 3 5 2 23 2 3 3
Below cutoff 1 1

Sequence


RefSeq Acc Id: ENSSSCT00000041192   ⟹   ENSSSCP00000050250
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl340,382,667 - 40,390,812 (+)Ensembl
RefSeq Acc Id: XM_021086854   ⟹   XP_020942513
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1340,383,325 - 40,391,567 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020942513 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000050250.3
  ENSSSCP00025010505.1
  ENSSSCP00030021831.1
  ENSSSCP00035029695.1
  ENSSSCP00045048117.1
  ENSSSCP00055049478.1
  ENSSSCP00065033208.1
RefSeq Acc Id: XP_020942513   ⟸   XM_021086854
- UniProtKB: A0A8D0WGR2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000050250   ⟸   ENSSSCT00000041192


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000037262 Ensembl, UniProtKB/TrEMBL
  ENSSSCG00025018329 UniProtKB/TrEMBL
  ENSSSCG00030034896 UniProtKB/TrEMBL
  ENSSSCG00035054860 UniProtKB/TrEMBL
  ENSSSCG00045038950 UniProtKB/TrEMBL
  ENSSSCG00055030881 UniProtKB/TrEMBL
  ENSSSCG00065055742 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000041192.3 UniProtKB/TrEMBL
  ENSSSCT00025024851.1 UniProtKB/TrEMBL
  ENSSSCT00030048328.1 UniProtKB/TrEMBL
  ENSSSCT00035073190.1 UniProtKB/TrEMBL
  ENSSSCT00045067705.1 UniProtKB/TrEMBL
  ENSSSCT00055061634.1 UniProtKB/TrEMBL
  ENSSSCT00065076321.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.200 UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/TrEMBL
  Pentraxin-related UniProtKB/TrEMBL
NCBI Gene PTX4 ENTREZGENE
PANTHER PENTRAXIN UniProtKB/TrEMBL
  PENTRAXIN-4 UniProtKB/TrEMBL
Pfam Pentaxin UniProtKB/TrEMBL
PRINTS PENTAXIN UniProtKB/TrEMBL
PROSITE PTX_2 UniProtKB/TrEMBL
SMART PTX UniProtKB/TrEMBL
Superfamily-SCOP SSF49899 UniProtKB/TrEMBL
UniProt A0A287B1G6_PIG UniProtKB/TrEMBL
  A0A8D0WGR2 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:110704 ENTREZGENE