Pcnx2 (pecanex 2) - Rat Genome Database

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Gene: Pcnx2 (pecanex 2) Rattus norvegicus
Analyze
Symbol: Pcnx2
Name: pecanex 2
RGD ID: 1305883
Description: Predicted to be located in membrane. Orthologous to human PCNX2 (pecanex 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC307949; LOC307974; LOC365028; Pcnxl2; pecanex 1; pecanex homolog 2; pecanex homolog 2 (Drosophila); pecanex-like 2; pecanex-like 2 (Drosophila); pecanex-like protein 2; RGD1305883; similar to cDNA sequence AF096286; similar to pecanex-like 2 isoform 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81970,616,240 - 70,766,869 (-)NCBIGRCr8
mRatBN7.21953,718,920 - 53,869,559 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1953,718,655 - 53,871,364 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01958,583,000 - 58,736,069 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1958,583,632 - 58,735,173 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01969,280,242 - 69,430,377 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41955,957,098 - 56,012,859 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11955,961,944 - 56,017,740 (-)NCBI
Celera1953,079,999 - 53,230,150 (-)NCBICelera
Cytogenetic Map19q12NCBI
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

Cellular Component
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Pcnx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81970,616,240 - 70,766,869 (-)NCBIGRCr8
mRatBN7.21953,718,920 - 53,869,559 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1953,718,655 - 53,871,364 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01958,583,000 - 58,736,069 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1958,583,632 - 58,735,173 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01969,280,242 - 69,430,377 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41955,957,098 - 56,012,859 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11955,961,944 - 56,017,740 (-)NCBI
Celera1953,079,999 - 53,230,150 (-)NCBICelera
Cytogenetic Map19q12NCBI
PCNX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381232,983,435 - 233,327,329 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1232,983,435 - 233,295,725 (-)EnsemblGRCh38hg38GRCh38
GRCh371233,119,181 - 233,431,471 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361231,186,505 - 231,498,082 (-)NCBINCBI36Build 36hg18NCBI36
Celera1206,390,263 - 206,701,642 (-)NCBICelera
Cytogenetic Map1q42.2NCBI
HuRef1203,609,792 - 203,921,197 (-)NCBIHuRef
CHM1_11234,393,427 - 234,704,993 (-)NCBICHM1_1
T2T-CHM13v2.01232,369,777 - 232,713,706 (-)NCBIT2T-CHM13v2.0
Pcnx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398126,478,243 - 126,625,056 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8126,478,247 - 126,625,056 (-)EnsemblGRCm39 Ensembl
GRCm388125,751,504 - 125,898,332 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8125,751,508 - 125,898,317 (-)EnsemblGRCm38mm10GRCm38
MGSCv378128,275,408 - 128,422,193 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368128,637,601 - 128,777,201 (-)NCBIMGSCv36mm8
Celera8130,064,419 - 130,211,590 (-)NCBICelera
Cytogenetic Map8E2NCBI
cM Map873.65NCBI
Pcnx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554926,043,754 - 6,248,730 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554926,043,577 - 6,249,483 (+)NCBIChiLan1.0ChiLan1.0
PCNX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2115,914,777 - 16,224,153 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1116,117,751 - 16,430,378 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01208,521,531 - 208,830,817 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11213,548,309 - 213,858,649 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1213,549,162 - 213,858,398 (-)Ensemblpanpan1.1panPan2
PCNX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.146,434,582 - 6,701,344 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl46,418,843 - 6,699,683 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha46,401,180 - 6,689,985 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.046,433,890 - 6,723,644 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl46,433,899 - 6,722,422 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.146,444,209 - 6,733,677 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.046,564,828 - 6,853,934 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.046,788,317 - 7,078,104 (+)NCBIUU_Cfam_GSD_1.0
Pcnx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934442,210,799 - 42,388,078 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648418,376,025 - 18,552,545 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648418,376,025 - 18,553,304 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCNX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11457,505,806 - 57,799,860 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21461,675,795 - 61,941,829 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCNX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12570,195,775 - 70,508,881 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605572,150,099 - 72,461,613 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcnx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477516,774,920 - 17,004,285 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477516,774,716 - 17,005,008 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcnx2
896 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:181
Count of miRNA genes:134
Interacting mature miRNAs:144
Transcripts:ENSRNOT00000030077, ENSRNOT00000072170
Prediction methods:Microtar, 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
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat

Markers in Region
BE097197  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21953,836,161 - 53,836,496 (+)MAPPERmRatBN7.2
mRatBN7.21953,836,323 - 53,836,496 (+)MAPPERmRatBN7.2
Rnor_6.01958,702,081 - 58,702,253NCBIRnor6.0
Rnor_6.01958,701,795 - 58,702,253NCBIRnor6.0
Rnor_5.01969,396,843 - 69,397,015UniSTSRnor5.0
Rnor_5.01969,396,557 - 69,397,015UniSTSRnor5.0
Celera1953,196,823 - 53,196,995UniSTS
Cytogenetic Map19q12UniSTS
RH134915  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21953,719,050 - 53,719,262 (+)MAPPERmRatBN7.2
Rnor_6.01958,583,131 - 58,583,342NCBIRnor6.0
Rnor_5.01969,280,373 - 69,280,584UniSTSRnor5.0
RGSC_v3.41955,956,600 - 55,956,811UniSTSRGSC3.4
Celera1953,080,130 - 53,080,341UniSTS
RH 3.4 Map19747.8UniSTS
Cytogenetic Map19q12UniSTS
RH136790  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21953,769,017 - 53,769,091 (+)MAPPERmRatBN7.2
Rnor_6.01958,632,913 - 58,632,986NCBIRnor6.0
Rnor_5.01969,330,155 - 69,330,228UniSTSRnor5.0
Celera1953,130,083 - 53,130,156UniSTS
RH 3.4 Map19742.5UniSTS
Cytogenetic Map19q12UniSTS
RH137613  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera1953,229,746 - 53,229,935UniSTS
Cytogenetic Map19q12UniSTS


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 96
Low 6 18 18 6 18 140 65 132 43
Below cutoff 21 72 138 61 60 61 30 26 14 50 9 18

Sequence


Ensembl Acc Id: ENSRNOT00000030077   ⟹   ENSRNOP00000038464
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1953,718,655 - 53,871,364 (-)Ensembl
Rnor_6.0 Ensembl1958,583,632 - 58,735,173 (-)Ensembl
RefSeq Acc Id: NM_001427189   ⟹   NP_001414118
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,616,240 - 70,766,869 (-)NCBI
RefSeq Acc Id: XM_039098293   ⟹   XP_038954221
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,665,405 - 70,766,867 (-)NCBI
mRatBN7.21953,768,099 - 53,869,559 (-)NCBI
RefSeq Acc Id: XM_063278079   ⟹   XP_063134149
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,616,240 - 70,766,869 (-)NCBI
RefSeq Acc Id: XM_063278080   ⟹   XP_063134150
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,616,240 - 70,766,867 (-)NCBI
RefSeq Acc Id: XM_063278081   ⟹   XP_063134151
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,627,178 - 70,766,867 (-)NCBI
RefSeq Acc Id: XM_063278082   ⟹   XP_063134152
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,634,630 - 70,766,867 (-)NCBI
RefSeq Acc Id: XM_063278083   ⟹   XP_063134153
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81970,616,240 - 70,727,050 (-)NCBI
Ensembl Acc Id: ENSRNOP00000038464   ⟸   ENSRNOT00000030077
RefSeq Acc Id: XP_038954221   ⟸   XM_039098293
- Peptide Label: isoform X5
RefSeq Acc Id: NP_001414118   ⟸   NM_001427189
- UniProtKB: D4AB99 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134149   ⟸   XM_063278079
- Peptide Label: isoform X1
- UniProtKB: D4AB99 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134150   ⟸   XM_063278080
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063134153   ⟸   XM_063278083
- Peptide Label: isoform X6
- UniProtKB: A6KJ41 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134151   ⟸   XM_063278081
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063134152   ⟸   XM_063278082
- Peptide Label: isoform X4
Protein Domains
Pecanex C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AB99-F1-model_v2 AlphaFold D4AB99 1-2125 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305883 AgrOrtholog
BioCyc Gene G2FUF-5202 BioCyc
Ensembl Genes ENSRNOG00000028580 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030077.8 UniProtKB/TrEMBL
InterPro Pecanex UniProtKB/TrEMBL
  Pecanex UniProtKB/TrEMBL
NCBI Gene 307949 ENTREZGENE
PANTHER PECANEX-LIKE PROTEIN 2 UniProtKB/TrEMBL
  PTHR12372 UniProtKB/TrEMBL
Pfam Pecanex_C UniProtKB/TrEMBL
PhenoGen Pcnx2 PhenoGen
RatGTEx ENSRNOG00000028580 RatGTEx
UniProt A6KJ41 ENTREZGENE, UniProtKB/TrEMBL
  D4AB99 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-07-20 Pcnx2  pecanex 2  Pcnx2  pecanex homolog 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-06-20 Pcnx2  pecanex homolog 2  Pcnx2  pecanex homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-27 Pcnx2  pecanex homolog 2 (Drosophila)  Pcnxl2  pecanex-like 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Pcnxl2  pecanex-like 2 (Drosophila)  LOC365028  similar to pecanex-like 2 isoform 1  Data merged from RGD:1586124 737654 PROVISIONAL
2015-07-29 Pcnxl2  pecanex-like 2 (Drosophila)  LOC307974  similar to pecanex-like 2 isoform 1  Data merged from RGD:1584975 737654 PROVISIONAL
2008-03-07 Pcnxl2  pecanex-like 2 (Drosophila)  RGD1305883_predicted  similar to cDNA sequence AF096286; pecanex 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC365028  similar to pecanex-like 2 isoform 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC307974  similar to pecanex-like 2 isoform 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1305883_predicted  similar to cDNA sequence AF096286; pecanex 1 (predicted)  LOC307949_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC307949_predicted  similar to cDNA sequence AF096286; pecanex 1 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL