Plac9 (placenta associated 9) - Rat Genome Database

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Gene: Plac9 (placenta associated 9) Rattus norvegicus
Analyze
Symbol: Plac9
Name: placenta associated 9
RGD ID: 1306662
Description: Orthologous to human PLAC9 (placenta associated 9); INTERACTS WITH 17beta-estradiol; 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC361105; placenta-specific 9; placenta-specific protein 9
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
GRCr8161,466,231 - 1,481,060 (-)NCBIGRCr8
mRatBN7.2161,459,450 - 1,474,275 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl161,459,456 - 1,474,399 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx161,465,768 - 1,480,604 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0162,611,608 - 2,626,440 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0161,472,364 - 1,487,198 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0163,851,107 - 3,866,008 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl163,851,270 - 3,866,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0163,817,143 - 3,831,918 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4161,497,710 - 1,512,542 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1161,497,709 - 1,512,571 (-)NCBI
Celera161,435,621 - 1,450,227 (-)NCBICelera
Cytogenetic Map16p16NCBI
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

Molecular Function

References

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

Genomics

Comparative Map Data
Plac9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8161,466,231 - 1,481,060 (-)NCBIGRCr8
mRatBN7.2161,459,450 - 1,474,275 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl161,459,456 - 1,474,399 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx161,465,768 - 1,480,604 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0162,611,608 - 2,626,440 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0161,472,364 - 1,487,198 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0163,851,107 - 3,866,008 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl163,851,270 - 3,866,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0163,817,143 - 3,831,918 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4161,497,710 - 1,512,542 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1161,497,709 - 1,512,571 (-)NCBI
Celera161,435,621 - 1,450,227 (-)NCBICelera
Cytogenetic Map16p16NCBI
PLAC9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381080,131,661 - 80,145,359 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1080,131,682 - 80,145,359 (+)EnsemblGRCh38hg38GRCh38
GRCh371081,891,417 - 81,905,115 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361081,882,238 - 81,894,766 (+)NCBINCBI36Build 36hg18NCBI36
Celera1075,883,196 - 75,895,722 (+)NCBICelera
Cytogenetic Map10q22.3NCBI
HuRef1075,735,716 - 75,748,229 (+)NCBIHuRef
CHM1_11082,175,228 - 82,187,737 (+)NCBICHM1_1
T2T-CHM13v2.01081,000,769 - 81,014,482 (+)NCBIT2T-CHM13v2.0
Plac9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391425,888,356 - 25,903,339 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1425,887,930 - 25,903,524 (-)EnsemblGRCm39 Ensembl
GRCm381425,888,403 - 25,902,893 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1425,887,506 - 25,903,100 (-)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl1426,027,282 - 26,042,711 (-)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl1426,167,405 - 26,182,480 (-)EnsemblGRCm38mm10GRCm38
MGSCv371426,707,889 - 26,722,379 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361424,721,587 - 24,736,077 (-)NCBIMGSCv36mm8
MGSCv361420,979,255 - 20,993,744 (-)NCBIMGSCv36mm8
Cytogenetic Map14A3NCBI
cM Map1415.41NCBI
Plac9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543713,100,613 - 13,113,555 (+)NCBIChiLan1.0ChiLan1.0
PLAC9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2891,755,139 - 91,768,146 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11091,757,423 - 91,773,542 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01076,126,851 - 76,139,908 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11078,784,818 - 78,797,760 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1078,784,823 - 78,797,749 (-)Ensemblpanpan1.1panPan2
PLAC9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha429,399,789 - 29,413,870 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0429,577,078 - 29,591,270 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1429,447,041 - 29,461,101 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0429,649,480 - 29,663,787 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0430,003,643 - 30,017,705 (-)NCBIUU_Cfam_GSD_1.0
Plac9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721351,721,107 - 51,732,281 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004936521213,830 - 225,006 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLAC9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1481,889,284 - 81,901,817 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11481,890,265 - 81,901,909 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21488,501,439 - 88,513,083 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PLAC9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1951,665,265 - 51,677,419 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604812,005,984 - 12,018,485 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Plac9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475412,507,948 - 12,521,949 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475412,508,070 - 12,521,886 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Plac9
118 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:62
Interacting mature miRNAs:64
Transcripts:ENSRNOT00000014964
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
2325838Bp347Blood pressure QTL 3470.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1613080679Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1549842Bp248Blood pressure QTL 2480.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)163802452995463Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
12903278Am16Aortic mass QTL 160.019aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)168323802995225Rat
12903279Cm115Cardiac mass QTL 1150.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)168323802995225Rat
12903281Cm116Cardiac mass QTL 1160.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)168323802995225Rat
12903952Cm117Cardiac mass QTL 1170.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)168323802995225Rat
12903954Bw186Body weight QTL 1860.011body mass (VT:0001259)body weight (CMO:0000012)168323802995225Rat
2301404Bp321Blood pressure QTL 3210.05arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)168323802995225Rat
12903955Kidm69Kidney mass QTL 690.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)168323804227609Rat

Markers in Region
RH124641  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2161,474,011 - 1,475,632 (-)MAPPERmRatBN7.2
Rnor_6.0163,849,941 - 3,851,561NCBIRnor6.0
Rnor_5.0163,815,984 - 3,817,604UniSTSRnor5.0
Cytogenetic Map16p16UniSTS


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 10 1 2 3 15 11 2
Low 3 23 42 27 19 27 6 8 46 32 19 6
Below cutoff 6 12 12 12 26 3 5

Sequence


RefSeq Acc Id: ENSRNOT00000014964   ⟹   ENSRNOP00000014964
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl161,459,456 - 1,474,399 (-)Ensembl
Rnor_6.0 Ensembl163,851,270 - 3,866,008 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102769   ⟹   ENSRNOP00000097622
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl161,459,456 - 1,474,154 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114500   ⟹   ENSRNOP00000079223
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl161,459,456 - 1,471,553 (-)Ensembl
RefSeq Acc Id: NM_001108395   ⟹   NP_001101865
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8161,466,231 - 1,481,052 (-)NCBI
mRatBN7.2161,459,455 - 1,474,275 (-)NCBI
Rnor_6.0163,851,351 - 3,865,551 (+)NCBI
Rnor_5.0163,817,143 - 3,831,918 (+)NCBI
RGSC_v3.4161,497,710 - 1,512,542 (-)RGD
Celera161,435,621 - 1,450,227 (-)RGD
Sequence:
RefSeq Acc Id: XM_039094614   ⟹   XP_038950542
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8161,466,231 - 1,481,060 (-)NCBI
mRatBN7.2161,459,450 - 1,474,072 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001101865 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950542 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL75086 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014964
  ENSRNOP00000014964.5
  ENSRNOP00000079223.1
  ENSRNOP00000097622
  ENSRNOP00000097622.1
RefSeq Acc Id: NP_001101865   ⟸   NM_001108395
- Peptide Label: precursor
- UniProtKB: D4A4Q7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000014964   ⟸   ENSRNOT00000014964
RefSeq Acc Id: XP_038950542   ⟸   XM_039094614
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AT08 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000097622   ⟸   ENSRNOT00000102769
RefSeq Acc Id: ENSRNOP00000079223   ⟸   ENSRNOT00000114500

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A4Q7-F1-model_v2 AlphaFold D4A4Q7 1-109 view protein structure

Transcriptome

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

Promoters
RGD ID:13699904
Promoter ID:EPDNEW_R10428
Type:initiation region
Name:Plac9_1
Description:placenta-specific 9
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_6.0163,851,304 - 3,851,364EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306662 AgrOrtholog
BioCyc Gene G2FUF-12264 BioCyc
Ensembl Genes ENSRNOG00000011263 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014964 ENTREZGENE
  ENSRNOT00000014964.6 UniProtKB/TrEMBL
  ENSRNOT00000102769.1 UniProtKB/TrEMBL
  ENSRNOT00000114500.1 UniProtKB/TrEMBL
InterPro PLAC9 UniProtKB/TrEMBL
KEGG Report rno:361105 UniProtKB/TrEMBL
NCBI Gene 361105 ENTREZGENE
PANTHER PLACENTA-SPECIFIC PROTEIN 9 UniProtKB/TrEMBL
  PTHR37355 UniProtKB/TrEMBL
Pfam PLAC9 UniProtKB/TrEMBL
PhenoGen Plac9 PhenoGen
RatGTEx ENSRNOG00000011263 RatGTEx
UniProt A0A8I5ZMZ4_RAT UniProtKB/TrEMBL
  A0A8I6AT08 ENTREZGENE, UniProtKB/TrEMBL
  A6KMI2_RAT UniProtKB/TrEMBL
  D4A4Q7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-03 Plac9  placenta associated 9  Plac9  placenta-specific 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Plac9  placenta-specific 9   Plac9_predicted  placenta-specific 9 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Plac9_predicted  placenta-specific 9 (predicted)      Symbol and Name status set to approved 70820 APPROVED